-- dump date 20140619_073124 -- class Genbank::misc_feature -- table misc_feature_note -- id note 640513000001 magnesium transport protein MgtC; Provisional; Region: PRK15385 640513000002 MgtC family; Region: MgtC; pfam02308 640513000003 magnesium-transporting ATPase; Provisional; Region: PRK15122 640513000004 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 640513000005 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640513000006 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 640513000007 motif II; other site 640513000008 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 640513000009 MbeB-like, N-term conserved region; Region: MbeB_N; pfam04837 640513000010 TolA C-terminal; Region: TolA; pfam06519 640513000011 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 640513000012 Glycosyl hydrolases family 28; Region: Glyco_hydro_28; pfam00295 640513000013 Protein of unknown function (DUF2767); Region: DUF2767; cl08104 640513000014 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 640513000015 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 640513000016 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640513000017 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640513000018 metal binding site [ion binding]; metal-binding site 640513000019 active site 640513000020 I-site; other site 640513000021 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; cd01948 640513000022 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 640513000023 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 640513000024 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; cd01948 640513000025 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 640513000026 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 640513000027 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640513000028 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640513000029 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640513000030 bifunctional enterobactin receptor/adhesin protein; Provisional; Region: PRK13486 640513000031 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 640513000032 N-terminal plug; other site 640513000033 ligand-binding site [chemical binding]; other site 640513000034 DoxX; Region: DoxX; pfam07681 640513000035 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 640513000036 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640513000037 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 640513000038 HAMP domain; Region: HAMP; pfam00672 640513000039 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640513000040 dimer interface [polypeptide binding]; other site 640513000041 putative CheW interface [polypeptide binding]; other site 640513000042 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 640513000043 Mg binding site [ion binding]; other site 640513000044 nucleotide binding site [chemical binding]; other site 640513000045 putative protofilament interface [polypeptide binding]; other site 640513000046 Plasmid stability protein; Region: Plasmid_stab_B; pfam10784 640513000047 Plasmid stability protein; Region: Plasmid_stab_B; pfam10784 640513000048 DNA methylase; Region: N6_N4_Mtase; cl17433 640513000049 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 640513000050 Protein of unknown function (DUF1380); Region: DUF1380; pfam07128 640513000051 Antirestriction protein; Region: Antirestrict; pfam03230 640513000052 Plasmid SOS inhibition protein (PsiB); Region: PsiB; cl11633 640513000053 PsiA protein; Region: PsiA; pfam06952 640513000054 small toxic polypeptide; Provisional; Region: PRK09738 640513000055 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 640513000056 Domain of unknown function (DUF932); Region: DUF932; pfam06067 640513000057 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 640513000058 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 640513000059 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640513000060 catalytic residue [active] 640513000061 TraM protein; Region: Tra_M; cl11621 640513000062 TraA; Region: TraA; cl11503 640513000063 conjugal transfer pilus assembly protein TraL; Provisional; Region: PRK13707 640513000064 TraE protein; Region: TraE; cl05060 640513000065 conjugal transfer protein TraK; Provisional; Region: PRK13736 640513000066 TraK protein; Region: TraK; pfam06586 640513000067 conjugal transfer pilus assembly protein TraB; Provisional; Region: PRK13729 640513000068 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 640513000069 conjugal transfer protein TraV; Provisional; Region: PRK13733 640513000070 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 640513000071 conjugal transfer ATP-binding protein TraC; Provisional; Region: PRK13721 640513000072 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 640513000073 Domain of unknown function DUF87; Region: DUF87; pfam01935 640513000074 Type-F conjugative transfer system protein (TrbI_Ftype); Region: TrbI_Ftype; pfam09677 640513000075 conjugal transfer pilus assembly protein TraW; Provisional; Region: PRK13738 640513000076 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 640513000077 TraU protein; Region: TraU; cl06067 640513000078 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; cl09883 640513000079 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 640513000080 conjugal pilus assembly protein TraF; Provisional; Region: PRK13703 640513000081 F plasmid transfer operon protein; Region: TraF; pfam13728 640513000082 conjugal transfer protein TrbB; Provisional; Region: PRK13728; cl17283 640513000083 conjugal transfer pilus assembly protein TraH; Provisional; Region: PRK13723 640513000084 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 640513000085 rod shape-determining protein MreD; Region: MreD; cl01087 640513000086 conjugal transfer surface exclusion protein TraT; Provisional; Region: PRK13731 640513000087 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 640513000088 type IV conjugative transfer system coupling protein TraD; Region: TraD_Ftype; TIGR02759 640513000089 F sex factor protein N terminal; Region: TraD_N; pfam12615 640513000090 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 640513000091 Walker A motif; other site 640513000092 ATP binding site [chemical binding]; other site 640513000093 Walker B motif; other site 640513000094 TrwC relaxase; Region: TrwC; pfam08751 640513000095 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 640513000096 conjugal transfer nickase/helicase TraI; Provisional; Region: PRK13709 640513000097 AAA domain; Region: AAA_30; pfam13604 640513000098 DNA helicase TraI; Region: TraI; pfam07057 640513000099 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 640513000100 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 640513000101 catalytic residues [active] 640513000102 IncFII RepA protein family; Region: IncFII_repA; cl11495 640513000103 Protein of unknown function (DUF2767); Region: DUF2767; cl08104 640513000104 TraX protein; Region: TraX; pfam05857 640513000105 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 640513000106 active site 640513000107 DNA binding site [nucleotide binding] 640513000108 Int/Topo IB signature motif; other site 640513000109 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 640513000110 pili assembly chaperone protein SafB; Provisional; Region: PRK15224 640513000111 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 640513000112 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 640513000113 Fimbrial protein; Region: Fimbrial; pfam00419 640513000114 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; cd01948 640513000115 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; cl17315 640513000116 DNA binding residues [nucleotide binding] 640513000117 dimerization interface [polypeptide binding]; other site 640513000118 type III secretion protein GogB; Provisional; Region: PRK15386 640513000119 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 640513000120 active site 640513000121 ATP binding site [chemical binding]; other site 640513000122 putative transposase OrfB; Reviewed; Region: PHA02517 640513000123 HTH-like domain; Region: HTH_21; pfam13276 640513000124 Integrase core domain; Region: rve; pfam00665 640513000125 Integrase core domain; Region: rve_3; pfam13683 640513000126 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640513000127 Transposase; Region: HTH_Tnp_1; pfam01527 640513000128 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 640513000129 active site 640513000130 DNA binding site [nucleotide binding] 640513000131 Int/Topo IB signature motif; other site 640513000132 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 640513000133 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 640513000134 active site 640513000135 DNA binding site [nucleotide binding] 640513000136 Int/Topo IB signature motif; other site 640513000137 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 640513000138 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 640513000139 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 640513000140 IucA / IucC family; Region: IucA_IucC; pfam04183 640513000141 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 640513000142 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 640513000143 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640513000144 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 640513000145 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513000146 catalytic residue [active] 640513000147 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; cl17315 640513000148 DNA binding residues [nucleotide binding] 640513000149 dimerization interface [polypeptide binding]; other site 640513000150 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; cd01948 640513000151 Fimbrial protein; Region: Fimbrial; pfam00419 640513000152 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 640513000153 PapC N-terminal domain; Region: PapC_N; pfam13954 640513000154 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 640513000155 PapC C-terminal domain; Region: PapC_C; pfam13953 640513000156 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 640513000157 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 640513000158 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 640513000159 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 640513000160 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 640513000161 active site 640513000162 DNA binding site [nucleotide binding] 640513000163 Int/Topo IB signature motif; other site 640513000164 ImpA domain protein; Region: DUF3702; pfam12486 640513000165 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 640513000166 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 640513000167 Walker A motif; other site 640513000168 ATP binding site [chemical binding]; other site 640513000169 Walker B motif; other site 640513000170 arginine finger; other site 640513000171 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 640513000172 Walker A motif; other site 640513000173 ATP binding site [chemical binding]; other site 640513000174 Walker B motif; other site 640513000175 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 640513000176 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 640513000177 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 640513000178 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 640513000179 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 640513000180 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 640513000181 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 640513000182 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 640513000183 PAAR motif; Region: PAAR_motif; pfam05488 640513000184 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 640513000185 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 640513000186 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640513000187 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 640513000188 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 640513000189 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 640513000190 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 640513000191 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 640513000192 Protein of unknown function (DUF877); Region: DUF877; pfam05943 640513000193 Protein of unknown function (DUF770); Region: DUF770; pfam05591 640513000194 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 640513000195 active site 640513000196 catalytic residues [active] 640513000197 DNA binding site [nucleotide binding] 640513000198 Int/Topo IB signature motif; other site 640513000199 Initiator Replication protein; Region: Rep_3; pfam01051 640513000200 plasmid-partitioning protein SopA; Provisional; Region: PRK13705 640513000201 MerR family regulatory protein; Region: MerR; pfam00376 640513000202 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 640513000203 P-loop; other site 640513000204 Magnesium ion binding site [ion binding]; other site 640513000205 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 640513000206 Magnesium ion binding site [ion binding]; other site 640513000207 plasmid-partitioning protein; Provisional; Region: PRK13698 640513000208 ParB-like nuclease domain; Region: ParB; smart00470 640513000209 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 640513000210 Transposase; Region: HTH_Tnp_1; pfam01527 640513000211 putative transposase OrfB; Reviewed; Region: PHA02517 640513000212 HTH-like domain; Region: HTH_21; pfam13276 640513000213 Integrase core domain; Region: rve; pfam00665 640513000214 Integrase core domain; Region: rve_3; pfam13683 640513000215 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 640513000216 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 640513000217 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 640513000218 Putative transposase; Region: Y2_Tnp; pfam04986 640513000219 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 640513000220 active site 640513000221 DNA binding site [nucleotide binding] 640513000222 Int/Topo IB signature motif; other site 640513000223 MltA-interacting protein MipA; Region: MipA; cl01504 640513000224 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640513000225 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 640513000226 active site 640513000227 phosphorylation site [posttranslational modification] 640513000228 intermolecular recognition site; other site 640513000229 dimerization interface [polypeptide binding]; other site 640513000230 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 640513000231 DNA binding site [nucleotide binding] 640513000232 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640513000233 HAMP domain; Region: HAMP; pfam00672 640513000234 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 640513000235 dimer interface [polypeptide binding]; other site 640513000236 phosphorylation site [posttranslational modification] 640513000237 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 640513000238 ATP binding site [chemical binding]; other site 640513000239 Mg2+ binding site [ion binding]; other site 640513000240 G-X-G motif; other site 640513000241 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640513000242 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640513000243 HlyD family secretion protein; Region: HlyD_3; pfam13437 640513000244 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640513000245 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 640513000246 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 640513000247 catalytic residues [active] 640513000248 catalytic nucleophile [active] 640513000249 Presynaptic Site I dimer interface [polypeptide binding]; other site 640513000250 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 640513000251 Synaptic Flat tetramer interface [polypeptide binding]; other site 640513000252 Synaptic Site I dimer interface [polypeptide binding]; other site 640513000253 DNA binding site [nucleotide binding] 640513000254 Helix-turn-helix domain of resolvase; Region: HTH_7; pfam02796 640513000255 DNA-binding interface [nucleotide binding]; DNA binding site 640513000256 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 640513000257 AAA domain; Region: AAA_22; pfam13401 640513000258 Walker A motif; other site 640513000259 ATP binding site [chemical binding]; other site 640513000260 Walker B motif; other site 640513000261 modulator of post-segregation killing protein; Provisional; Region: PRK13720 640513000262 DnaA N-terminal domain; Region: DnaA_N; pfam11638 640513000263 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 640513000264 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 640513000265 Walker A motif; other site 640513000266 ATP binding site [chemical binding]; other site 640513000267 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; cl17189 640513000268 Walker B motif; other site 640513000269 arginine finger; other site 640513000270 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 640513000271 DnaA box-binding interface [nucleotide binding]; other site 640513000272 DNA polymerase III subunit beta; Validated; Region: PRK05643 640513000273 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 640513000274 putative DNA binding surface [nucleotide binding]; other site 640513000275 dimer interface [polypeptide binding]; other site 640513000276 beta-clamp/clamp loader binding surface; other site 640513000277 beta-clamp/translesion DNA polymerase binding surface; other site 640513000278 recF protein; Region: recf; TIGR00611 640513000279 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513000280 Walker A/P-loop; other site 640513000281 ATP binding site [chemical binding]; other site 640513000282 Q-loop/lid; other site 640513000283 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513000284 ABC transporter signature motif; other site 640513000285 Walker B; other site 640513000286 D-loop; other site 640513000287 H-loop/switch region; other site 640513000288 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 640513000289 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 640513000290 Mg2+ binding site [ion binding]; other site 640513000291 G-X-G motif; other site 640513000292 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 640513000293 anchoring element; other site 640513000294 dimer interface [polypeptide binding]; other site 640513000295 ATP binding site [chemical binding]; other site 640513000296 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 640513000297 active site 640513000298 putative metal-binding site [ion binding]; other site 640513000299 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 640513000300 sugar phosphate phosphatase; Provisional; Region: PRK10513 640513000301 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 640513000302 active site 640513000303 motif I; other site 640513000304 motif II; other site 640513000305 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 640513000306 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 640513000307 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 640513000308 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 640513000309 shikimate binding site; other site 640513000310 NAD(P) binding site [chemical binding]; other site 640513000311 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 640513000312 hypothetical protein; Provisional; Region: PRK11616 640513000313 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 640513000314 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 640513000315 putative dimer interface [polypeptide binding]; other site 640513000316 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 640513000317 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 640513000318 putative dimer interface [polypeptide binding]; other site 640513000319 putative transporter; Validated; Region: PRK03818 640513000320 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 640513000321 TrkA-C domain; Region: TrkA_C; pfam02080 640513000322 TrkA-C domain; Region: TrkA_C; pfam02080 640513000323 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 640513000324 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640513000325 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640513000326 DNA-binding site [nucleotide binding]; DNA binding site 640513000327 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 640513000328 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 640513000329 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 640513000330 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 640513000331 active site turn [active] 640513000332 phosphorylation site [posttranslational modification] 640513000333 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 640513000334 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 640513000335 NAD binding site [chemical binding]; other site 640513000336 sugar binding site [chemical binding]; other site 640513000337 divalent metal binding site [ion binding]; other site 640513000338 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 640513000339 dimer interface [polypeptide binding]; other site 640513000340 PAAR motif; Region: PAAR_motif; pfam05488 640513000341 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 640513000342 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 640513000343 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 640513000344 Predicted membrane protein [Function unknown]; Region: COG2149 640513000345 Domain of unknown function (DUF202); Region: DUF202; pfam02656 640513000346 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 640513000347 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 640513000348 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640513000349 catalytic residue [active] 640513000350 permease DsdX; Provisional; Region: PRK09921 640513000351 gluconate transporter; Region: gntP; TIGR00791 640513000352 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 640513000353 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513000354 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 640513000355 dimerization interface [polypeptide binding]; other site 640513000356 substrate binding pocket [chemical binding]; other site 640513000357 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 640513000358 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 640513000359 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 640513000360 putative substrate translocation pore; other site 640513000361 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 640513000362 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 640513000363 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640513000364 Coenzyme A binding pocket [chemical binding]; other site 640513000365 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 640513000366 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 640513000367 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 640513000368 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 640513000369 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 640513000370 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640513000371 PYR/PP interface [polypeptide binding]; other site 640513000372 dimer interface [polypeptide binding]; other site 640513000373 TPP binding site [chemical binding]; other site 640513000374 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640513000375 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 640513000376 TPP-binding site [chemical binding]; other site 640513000377 dimer interface [polypeptide binding]; other site 640513000378 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 640513000379 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 640513000380 putative valine binding site [chemical binding]; other site 640513000381 dimer interface [polypeptide binding]; other site 640513000382 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 640513000383 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 640513000384 active site 640513000385 phosphorylation site [posttranslational modification] 640513000386 intermolecular recognition site; other site 640513000387 dimerization interface [polypeptide binding]; other site 640513000388 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 640513000389 DNA binding residues [nucleotide binding] 640513000390 dimerization interface [polypeptide binding]; other site 640513000391 sensory histidine kinase UhpB; Provisional; Region: PRK11644 640513000392 MASE1; Region: MASE1; pfam05231 640513000393 Histidine kinase; Region: HisKA_3; pfam07730 640513000394 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 640513000395 ATP binding site [chemical binding]; other site 640513000396 Mg2+ binding site [ion binding]; other site 640513000397 G-X-G motif; other site 640513000398 regulatory protein UhpC; Provisional; Region: PRK11663 640513000399 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 640513000400 putative substrate translocation pore; other site 640513000401 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 640513000402 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 640513000403 putative substrate translocation pore; other site 640513000404 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 640513000405 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513000406 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513000407 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_3; cd08461 640513000408 putative substrate binding pocket [chemical binding]; other site 640513000409 putative dimerization interface [polypeptide binding]; other site 640513000410 Protein of unknown function (DUF1198); Region: DUF1198; pfam06711 640513000411 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 640513000412 putative hydrophobic ligand binding site [chemical binding]; other site 640513000413 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 640513000414 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 640513000415 putative substrate translocation pore; other site 640513000416 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 640513000417 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 640513000418 motif II; other site 640513000419 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 640513000420 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640513000421 catalytic residue [active] 640513000422 transcriptional regulator protein; Region: phnR; TIGR03337 640513000423 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640513000424 DNA-binding site [nucleotide binding]; DNA binding site 640513000425 UTRA domain; Region: UTRA; pfam07702 640513000426 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 640513000427 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 640513000428 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT; Region: PhnT; TIGR03258 640513000429 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513000430 Walker A/P-loop; other site 640513000431 ATP binding site [chemical binding]; other site 640513000432 Q-loop/lid; other site 640513000433 ABC transporter signature motif; other site 640513000434 Walker B; other site 640513000435 D-loop; other site 640513000436 H-loop/switch region; other site 640513000437 TOBE domain; Region: TOBE_2; pfam08402 640513000438 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 640513000439 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 640513000440 dimer interface [polypeptide binding]; other site 640513000441 conserved gate region; other site 640513000442 putative PBP binding loops; other site 640513000443 ABC-ATPase subunit interface; other site 640513000444 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640513000445 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 640513000446 dimer interface [polypeptide binding]; other site 640513000447 conserved gate region; other site 640513000448 putative PBP binding loops; other site 640513000449 ABC-ATPase subunit interface; other site 640513000450 EamA-like transporter family; Region: EamA; pfam00892 640513000451 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 640513000452 EamA-like transporter family; Region: EamA; pfam00892 640513000453 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 640513000454 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 640513000455 methionine cluster; other site 640513000456 active site 640513000457 phosphorylation site [posttranslational modification] 640513000458 metal binding site [ion binding]; metal-binding site 640513000459 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 640513000460 beta-galactosidase; Region: BGL; TIGR03356 640513000461 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 640513000462 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 640513000463 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 640513000464 active site 640513000465 P-loop; other site 640513000466 phosphorylation site [posttranslational modification] 640513000467 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640513000468 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640513000469 DNA binding site [nucleotide binding] 640513000470 domain linker motif; other site 640513000471 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 640513000472 ligand binding site [chemical binding]; other site 640513000473 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 640513000474 putative substrate translocation pore; other site 640513000475 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 640513000476 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 640513000477 Protein export membrane protein; Region: SecD_SecF; cl14618 640513000478 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 640513000479 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640513000480 HlyD family secretion protein; Region: HlyD_3; pfam13437 640513000481 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640513000482 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640513000483 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 640513000484 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640513000485 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640513000486 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640513000487 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 640513000488 putative substrate translocation pore; other site 640513000489 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 640513000490 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 640513000491 oligomeric interface; other site 640513000492 putative active site [active] 640513000493 homodimer interface [polypeptide binding]; other site 640513000494 cytoplasmic membrane lipoprotein-28; Provisional; Region: PRK09861 640513000495 lipoprotein, YaeC family; Region: TIGR00363 640513000496 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 640513000497 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 640513000498 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 640513000499 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640513000500 conserved cys residue [active] 640513000501 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513000502 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513000503 Predicted ATPase [General function prediction only]; Region: COG4637 640513000504 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513000505 Walker A/P-loop; other site 640513000506 ATP binding site [chemical binding]; other site 640513000507 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513000508 ABC transporter signature motif; other site 640513000509 Walker B; other site 640513000510 D-loop; other site 640513000511 H-loop/switch region; other site 640513000512 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513000513 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513000514 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 640513000515 putative effector binding pocket; other site 640513000516 dimerization interface [polypeptide binding]; other site 640513000517 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 640513000518 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 640513000519 Protein of unknown function (DUF523); Region: DUF523; pfam04463 640513000520 Uncharacterized conserved protein [Function unknown]; Region: COG3272 640513000521 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 640513000522 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 640513000523 active site 640513000524 homotetramer interface [polypeptide binding]; other site 640513000525 transcriptional regulator MirA; Provisional; Region: PRK15043 640513000526 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 640513000527 DNA binding residues [nucleotide binding] 640513000528 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 640513000529 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 640513000530 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 640513000531 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 640513000532 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640513000533 Coenzyme A binding pocket [chemical binding]; other site 640513000534 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; cl07446 640513000535 HicB family; Region: HicB; pfam05534 640513000536 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 640513000537 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 640513000538 putative active site [active] 640513000539 putative NTP binding site [chemical binding]; other site 640513000540 putative nucleic acid binding site [nucleotide binding]; other site 640513000541 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 640513000542 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 640513000543 putative active site [active] 640513000544 putative NTP binding site [chemical binding]; other site 640513000545 putative nucleic acid binding site [nucleotide binding]; other site 640513000546 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 640513000547 putative transporter; Provisional; Region: PRK11462 640513000548 putative alpha-glucosidase; Provisional; Region: PRK10658 640513000549 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 640513000550 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 640513000551 active site 640513000552 homotrimer interface [polypeptide binding]; other site 640513000553 catalytic site [active] 640513000554 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 640513000555 AsmA family; Region: AsmA; pfam05170 640513000556 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 640513000557 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 640513000558 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 640513000559 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 640513000560 generic binding surface II; other site 640513000561 ssDNA binding site; other site 640513000562 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 640513000563 ATP binding site [chemical binding]; other site 640513000564 putative Mg++ binding site [ion binding]; other site 640513000565 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 640513000566 nucleotide binding region [chemical binding]; other site 640513000567 ATP-binding site [chemical binding]; other site 640513000568 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 640513000569 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 640513000570 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 640513000571 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 640513000572 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 640513000573 Zn2+ binding site [ion binding]; other site 640513000574 Mg2+ binding site [ion binding]; other site 640513000575 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 640513000576 synthetase active site [active] 640513000577 NTP binding site [chemical binding]; other site 640513000578 metal binding site [ion binding]; metal-binding site 640513000579 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 640513000580 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 640513000581 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 640513000582 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 640513000583 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 640513000584 catalytic site [active] 640513000585 G-X2-G-X-G-K; other site 640513000586 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 640513000587 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; cl03295 640513000588 nucleotide binding pocket [chemical binding]; other site 640513000589 K-X-D-G motif; other site 640513000590 catalytic site [active] 640513000591 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 640513000592 Phage integrase protein; Region: DUF3701; pfam12482 640513000593 Predicted membrane protein [Function unknown]; Region: COG2860 640513000594 UPF0126 domain; Region: UPF0126; pfam03458 640513000595 UPF0126 domain; Region: UPF0126; pfam03458 640513000596 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513000597 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513000598 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 640513000599 putative effector binding pocket; other site 640513000600 putative dimerization interface [polypeptide binding]; other site 640513000601 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640513000602 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 640513000603 putative NAD(P) binding site [chemical binding]; other site 640513000604 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 640513000605 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 640513000606 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 640513000607 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 640513000608 DNA binding site [nucleotide binding] 640513000609 active site 640513000610 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 640513000611 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 640513000612 tetramer interface [polypeptide binding]; other site 640513000613 active site 640513000614 Mg2+/Mn2+ binding site [ion binding]; other site 640513000615 hypothetical protein; Provisional; Region: PRK11820 640513000616 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 640513000617 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 640513000618 ribonuclease PH; Reviewed; Region: rph; PRK00173 640513000619 Ribonuclease PH; Region: RNase_PH_bact; cd11362 640513000620 hexamer interface [polypeptide binding]; other site 640513000621 active site 640513000622 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640513000623 active site 640513000624 division inhibitor protein; Provisional; Region: slmA; PRK09480 640513000625 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640513000626 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 640513000627 trimer interface [polypeptide binding]; other site 640513000628 active site 640513000629 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 640513000630 Flavoprotein; Region: Flavoprotein; pfam02441 640513000631 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 640513000632 hypothetical protein; Reviewed; Region: PRK00024 640513000633 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 640513000634 MPN+ (JAMM) motif; other site 640513000635 Zinc-binding site [ion binding]; other site 640513000636 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 640513000637 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 640513000638 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 640513000639 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 640513000640 DNA binding site [nucleotide binding] 640513000641 catalytic residue [active] 640513000642 H2TH interface [polypeptide binding]; other site 640513000643 putative catalytic residues [active] 640513000644 turnover-facilitating residue; other site 640513000645 intercalation triad [nucleotide binding]; other site 640513000646 8OG recognition residue [nucleotide binding]; other site 640513000647 putative reading head residues; other site 640513000648 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 640513000649 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 640513000650 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 640513000651 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 640513000652 active site 640513000653 (T/H)XGH motif; other site 640513000654 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 640513000655 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 640513000656 putative metal binding site; other site 640513000657 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 640513000658 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 640513000659 Glycosyl transferases group 1; Region: Glycos_transf_1; pfam00534 640513000660 putative glycosyl transferase; Provisional; Region: PRK10073 640513000661 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 640513000662 active site 640513000663 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640513000664 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 640513000665 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640513000666 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 640513000667 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640513000668 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 640513000669 putative active site [active] 640513000670 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640513000671 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 640513000672 putative active site [active] 640513000673 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 640513000674 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 640513000675 putative active site [active] 640513000676 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 640513000677 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 640513000678 NADP binding site [chemical binding]; other site 640513000679 homopentamer interface [polypeptide binding]; other site 640513000680 substrate binding site [chemical binding]; other site 640513000681 active site 640513000682 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 640513000683 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 640513000684 substrate-cofactor binding pocket; other site 640513000685 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513000686 catalytic residue [active] 640513000687 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 640513000688 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640513000689 NAD(P) binding site [chemical binding]; other site 640513000690 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 640513000691 Sulfatase; Region: Sulfatase; pfam00884 640513000692 O-Antigen ligase; Region: Wzy_C; pfam04932 640513000693 putative glycosyl transferase; Provisional; Region: PRK10018 640513000694 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 640513000695 active site 640513000696 Capsular polysaccharide synthesis protein; Region: Caps_synth; pfam05704 640513000697 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 640513000698 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 640513000699 NodB motif; other site 640513000700 putative active site [active] 640513000701 putative catalytic site [active] 640513000702 Zn binding site [ion binding]; other site 640513000703 AmiB activator; Provisional; Region: PRK11637 640513000704 Peptidase family M23; Region: Peptidase_M23; pfam01551 640513000705 phosphoglyceromutase; Provisional; Region: PRK05434 640513000706 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 640513000707 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 640513000708 active site residue [active] 640513000709 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 640513000710 GSH binding site [chemical binding]; other site 640513000711 catalytic residues [active] 640513000712 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 640513000713 SecA binding site; other site 640513000714 Preprotein binding site; other site 640513000715 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 640513000716 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 640513000717 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 640513000718 serine acetyltransferase; Provisional; Region: cysE; PRK11132 640513000719 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 640513000720 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 640513000721 trimer interface [polypeptide binding]; other site 640513000722 active site 640513000723 substrate binding site [chemical binding]; other site 640513000724 CoA binding site [chemical binding]; other site 640513000725 putative rRNA methylase; Provisional; Region: PRK10358 640513000726 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 640513000727 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 640513000728 active site 640513000729 substrate binding site [chemical binding]; other site 640513000730 FMN binding site [chemical binding]; other site 640513000731 putative catalytic residues [active] 640513000732 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 640513000733 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640513000734 DNA-binding site [nucleotide binding]; DNA binding site 640513000735 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640513000736 L-lactate permease; Provisional; Region: PRK10420 640513000737 glycolate transporter; Provisional; Region: PRK09695 640513000738 hypothetical protein; Provisional; Region: PRK11020 640513000739 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 640513000740 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 640513000741 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 640513000742 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 640513000743 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 640513000744 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 640513000745 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 640513000746 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 640513000747 active site 640513000748 P-loop; other site 640513000749 phosphorylation site [posttranslational modification] 640513000750 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 640513000751 active site 640513000752 phosphorylation site [posttranslational modification] 640513000753 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 640513000754 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 640513000755 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640513000756 HlyD family secretion protein; Region: HlyD_3; pfam13437 640513000757 putative glutathione S-transferase; Provisional; Region: PRK10357 640513000758 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 640513000759 putative C-terminal domain interface [polypeptide binding]; other site 640513000760 putative GSH binding site (G-site) [chemical binding]; other site 640513000761 putative dimer interface [polypeptide binding]; other site 640513000762 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 640513000763 dimer interface [polypeptide binding]; other site 640513000764 N-terminal domain interface [polypeptide binding]; other site 640513000765 putative substrate binding pocket (H-site) [chemical binding]; other site 640513000766 selenocysteine synthase; Provisional; Region: PRK04311 640513000767 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 640513000768 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 640513000769 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640513000770 catalytic residue [active] 640513000771 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 640513000772 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 640513000773 G1 box; other site 640513000774 putative GEF interaction site [polypeptide binding]; other site 640513000775 GTP/Mg2+ binding site [chemical binding]; other site 640513000776 Switch I region; other site 640513000777 G2 box; other site 640513000778 G3 box; other site 640513000779 Switch II region; other site 640513000780 G4 box; other site 640513000781 G5 box; other site 640513000782 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 640513000783 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 640513000784 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 640513000785 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 640513000786 putative alcohol dehydrogenase; Provisional; Region: PRK09860 640513000787 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 640513000788 dimer interface [polypeptide binding]; other site 640513000789 active site 640513000790 metal binding site [ion binding]; metal-binding site 640513000791 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 640513000792 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640513000793 NAD(P) binding site [chemical binding]; other site 640513000794 catalytic residues [active] 640513000795 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513000796 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513000797 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 640513000798 dimerization interface [polypeptide binding]; other site 640513000799 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 640513000800 YcfA-like protein; Region: YcfA; pfam07927 640513000801 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 640513000802 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 640513000803 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 640513000804 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 640513000805 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 640513000806 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640513000807 Helix-turn-helix domain; Region: HTH_18; pfam12833 640513000808 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513000809 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 640513000810 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 640513000811 intersubunit interface [polypeptide binding]; other site 640513000812 active site 640513000813 Zn2+ binding site [ion binding]; other site 640513000814 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 640513000815 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 640513000816 AP (apurinic/apyrimidinic) site pocket; other site 640513000817 DNA interaction; other site 640513000818 Metal-binding active site; metal-binding site 640513000819 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 640513000820 active site 640513000821 dimer interface [polypeptide binding]; other site 640513000822 magnesium binding site [ion binding]; other site 640513000823 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 640513000824 putative N- and C-terminal domain interface [polypeptide binding]; other site 640513000825 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 640513000826 putative active site [active] 640513000827 MgATP binding site [chemical binding]; other site 640513000828 catalytic site [active] 640513000829 metal binding site [ion binding]; metal-binding site 640513000830 putative xylulose binding site [chemical binding]; other site 640513000831 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 640513000832 D-galactonate transporter; Region: 2A0114; TIGR00893 640513000833 putative substrate translocation pore; other site 640513000834 Domain of unknown function (DUF386); Region: DUF386; pfam04074 640513000835 2,3-diketo-L-gulonate reductase; Provisional; Region: PRK13260 640513000836 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640513000837 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640513000838 Bacterial transcriptional regulator; Region: IclR; pfam01614 640513000839 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 640513000840 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 640513000841 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 640513000842 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513000843 homodimer interface [polypeptide binding]; other site 640513000844 catalytic residue [active] 640513000845 alpha-amylase; Reviewed; Region: malS; PRK09505 640513000846 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 640513000847 active site 640513000848 catalytic site [active] 640513000849 hypothetical protein; Provisional; Region: PRK10356 640513000850 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 640513000851 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 640513000852 putative dimerization interface [polypeptide binding]; other site 640513000853 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640513000854 putative ligand binding site [chemical binding]; other site 640513000855 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513000856 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640513000857 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513000858 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640513000859 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 640513000860 TM-ABC transporter signature motif; other site 640513000861 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 640513000862 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640513000863 Walker A/P-loop; other site 640513000864 ATP binding site [chemical binding]; other site 640513000865 Q-loop/lid; other site 640513000866 ABC transporter signature motif; other site 640513000867 Walker B; other site 640513000868 D-loop; other site 640513000869 H-loop/switch region; other site 640513000870 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640513000871 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 640513000872 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 640513000873 putative ligand binding site [chemical binding]; other site 640513000874 xylose isomerase; Provisional; Region: PRK05474 640513000875 xylose isomerase; Region: xylose_isom_A; TIGR02630 640513000876 xylulokinase; Provisional; Region: PRK15027 640513000877 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 640513000878 N- and C-terminal domain interface [polypeptide binding]; other site 640513000879 active site 640513000880 MgATP binding site [chemical binding]; other site 640513000881 catalytic site [active] 640513000882 metal binding site [ion binding]; metal-binding site 640513000883 xylulose binding site [chemical binding]; other site 640513000884 homodimer interface [polypeptide binding]; other site 640513000885 Isochorismatase family; Region: Isochorismatase; pfam00857 640513000886 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; cl00220 640513000887 catalytic triad [active] 640513000888 conserved cis-peptide bond; other site 640513000889 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640513000890 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640513000891 conserved cys residue [active] 640513000892 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513000893 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 640513000894 Acyltransferase family; Region: Acyl_transf_3; pfam01757 640513000895 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 640513000896 YsaB-like lipoprotein; Region: YsaB; pfam13983 640513000897 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 640513000898 dimer interface [polypeptide binding]; other site 640513000899 motif 1; other site 640513000900 active site 640513000901 motif 2; other site 640513000902 motif 3; other site 640513000903 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 640513000904 DALR anticodon binding domain; Region: DALR_1; pfam05746 640513000905 anticodon binding site; other site 640513000906 tRNA binding surface [nucleotide binding]; other site 640513000907 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 640513000908 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513000909 Walker A/P-loop; other site 640513000910 ATP binding site [chemical binding]; other site 640513000911 Q-loop/lid; other site 640513000912 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640513000913 ABC transporter signature motif; other site 640513000914 Walker B; other site 640513000915 D-loop; other site 640513000916 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640513000917 ABC transporter; Region: ABC_tran; pfam00005 640513000918 Predicted transcriptional regulator [Transcription]; Region: COG2944 640513000919 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 640513000920 salt bridge; other site 640513000921 non-specific DNA binding site [nucleotide binding]; other site 640513000922 sequence-specific DNA binding site [nucleotide binding]; other site 640513000923 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 640513000924 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 640513000925 DNA-binding site [nucleotide binding]; DNA binding site 640513000926 RNA-binding motif; other site 640513000927 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 640513000928 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 640513000929 dimerization interface [polypeptide binding]; other site 640513000930 ligand binding site [chemical binding]; other site 640513000931 NADP binding site [chemical binding]; other site 640513000932 catalytic site [active] 640513000933 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 640513000934 D-galactonate transporter; Region: 2A0114; TIGR00893 640513000935 putative substrate translocation pore; other site 640513000936 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640513000937 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 640513000938 substrate binding site [chemical binding]; other site 640513000939 ATP binding site [chemical binding]; other site 640513000940 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 640513000941 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640513000942 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640513000943 DNA binding site [nucleotide binding] 640513000944 domain linker motif; other site 640513000945 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 640513000946 putative dimerization interface [polypeptide binding]; other site 640513000947 putative ligand binding site [chemical binding]; other site 640513000948 putative outer membrane lipoprotein; Provisional; Region: PRK10510 640513000949 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640513000950 ligand binding site [chemical binding]; other site 640513000951 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 640513000952 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 640513000953 molybdopterin cofactor binding site [chemical binding]; other site 640513000954 substrate binding site [chemical binding]; other site 640513000955 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 640513000956 molybdopterin cofactor binding site; other site 640513000957 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 640513000958 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640513000959 Coenzyme A binding pocket [chemical binding]; other site 640513000960 3-methyl-adenine DNA glycosylase I; Provisional; Region: PRK10353 640513000961 Autotransporter beta-domain; Region: Autotransporter; cl17461 640513000962 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 640513000963 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 640513000964 putative substrate translocation pore; other site 640513000965 phosphoethanolamine transferase; Provisional; Region: PRK11560 640513000966 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 640513000967 Sulfatase; Region: Sulfatase; pfam00884 640513000968 Fimbrial protein; Region: Fimbrial; pfam00419 640513000969 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 640513000970 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 640513000971 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 640513000972 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 640513000973 PapC N-terminal domain; Region: PapC_N; pfam13954 640513000974 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 640513000975 PapC C-terminal domain; Region: PapC_C; pfam13953 640513000976 Fimbrial protein; Region: Fimbrial; cl01416 640513000977 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640513000978 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 640513000979 peptide binding site [polypeptide binding]; other site 640513000980 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640513000981 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 640513000982 dimer interface [polypeptide binding]; other site 640513000983 conserved gate region; other site 640513000984 putative PBP binding loops; other site 640513000985 ABC-ATPase subunit interface; other site 640513000986 dipeptide transporter; Provisional; Region: PRK10913 640513000987 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 640513000988 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 640513000989 dimer interface [polypeptide binding]; other site 640513000990 conserved gate region; other site 640513000991 putative PBP binding loops; other site 640513000992 ABC-ATPase subunit interface; other site 640513000993 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 640513000994 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640513000995 Walker A/P-loop; other site 640513000996 ATP binding site [chemical binding]; other site 640513000997 Q-loop/lid; other site 640513000998 ABC transporter signature motif; other site 640513000999 Walker B; other site 640513001000 D-loop; other site 640513001001 H-loop/switch region; other site 640513001002 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 640513001003 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 640513001004 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640513001005 Walker A/P-loop; other site 640513001006 ATP binding site [chemical binding]; other site 640513001007 Q-loop/lid; other site 640513001008 ABC transporter signature motif; other site 640513001009 Walker B; other site 640513001010 D-loop; other site 640513001011 H-loop/switch region; other site 640513001012 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 640513001013 pantothenate kinase; Provisional; Region: PRK05439 640513001014 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 640513001015 ATP-binding site [chemical binding]; other site 640513001016 CoA-binding site [chemical binding]; other site 640513001017 Mg2+-binding site [ion binding]; other site 640513001018 elongation factor Tu; Reviewed; Region: PRK00049 640513001019 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 640513001020 G1 box; other site 640513001021 GEF interaction site [polypeptide binding]; other site 640513001022 GTP/Mg2+ binding site [chemical binding]; other site 640513001023 Switch I region; other site 640513001024 G2 box; other site 640513001025 G3 box; other site 640513001026 Switch II region; other site 640513001027 G4 box; other site 640513001028 G5 box; other site 640513001029 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 640513001030 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 640513001031 Antibiotic Binding Site [chemical binding]; other site 640513001032 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 640513001033 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 640513001034 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 640513001035 putative homodimer interface [polypeptide binding]; other site 640513001036 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 640513001037 heterodimer interface [polypeptide binding]; other site 640513001038 homodimer interface [polypeptide binding]; other site 640513001039 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 640513001040 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 640513001041 23S rRNA interface [nucleotide binding]; other site 640513001042 L7/L12 interface [polypeptide binding]; other site 640513001043 putative thiostrepton binding site; other site 640513001044 L25 interface [polypeptide binding]; other site 640513001045 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 640513001046 mRNA/rRNA interface [nucleotide binding]; other site 640513001047 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 640513001048 23S rRNA interface [nucleotide binding]; other site 640513001049 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 640513001050 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 640513001051 core dimer interface [polypeptide binding]; other site 640513001052 peripheral dimer interface [polypeptide binding]; other site 640513001053 L10 interface [polypeptide binding]; other site 640513001054 L11 interface [polypeptide binding]; other site 640513001055 putative EF-Tu interaction site [polypeptide binding]; other site 640513001056 putative EF-G interaction site [polypeptide binding]; other site 640513001057 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 640513001058 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 640513001059 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 640513001060 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 640513001061 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 640513001062 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 640513001063 RPB3 interaction site [polypeptide binding]; other site 640513001064 RPB1 interaction site [polypeptide binding]; other site 640513001065 RPB11 interaction site [polypeptide binding]; other site 640513001066 RPB10 interaction site [polypeptide binding]; other site 640513001067 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 640513001068 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 640513001069 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 640513001070 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 640513001071 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 640513001072 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 640513001073 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 640513001074 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 640513001075 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 640513001076 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 640513001077 DNA binding site [nucleotide binding] 640513001078 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 640513001079 methionine cluster; other site 640513001080 PTS system, Lactose/Cellobiose specific IIA subunit; Region: PTS_IIA; pfam02255 640513001081 active site 640513001082 phosphorylation site [posttranslational modification] 640513001083 metal binding site [ion binding]; metal-binding site 640513001084 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 640513001085 active site 640513001086 P-loop; other site 640513001087 phosphorylation site [posttranslational modification] 640513001088 Cache domain; Region: Cache_1; pfam02743 640513001089 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640513001090 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640513001091 metal binding site [ion binding]; metal-binding site 640513001092 active site 640513001093 I-site; other site 640513001094 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 640513001095 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 640513001096 FeS/SAM binding site; other site 640513001097 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 640513001098 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 640513001099 ThiS interaction site; other site 640513001100 putative active site [active] 640513001101 tetramer interface [polypeptide binding]; other site 640513001102 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 640513001103 thiS-thiF/thiG interaction site; other site 640513001104 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 640513001105 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 640513001106 ATP binding site [chemical binding]; other site 640513001107 substrate interface [chemical binding]; other site 640513001108 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 640513001109 thiamine phosphate binding site [chemical binding]; other site 640513001110 active site 640513001111 pyrophosphate binding site [ion binding]; other site 640513001112 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 640513001113 ThiC-associated domain; Region: ThiC-associated; pfam13667 640513001114 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 640513001115 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 640513001116 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 640513001117 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 640513001118 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 640513001119 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 640513001120 putative NADH binding site [chemical binding]; other site 640513001121 putative active site [active] 640513001122 nudix motif; other site 640513001123 putative metal binding site [ion binding]; other site 640513001124 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 640513001125 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 640513001126 substrate binding site [chemical binding]; other site 640513001127 active site 640513001128 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 640513001129 Active_site [active] 640513001130 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 640513001131 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 640513001132 IHF dimer interface [polypeptide binding]; other site 640513001133 IHF - DNA interface [nucleotide binding]; other site 640513001134 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 640513001135 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 640513001136 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 640513001137 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 640513001138 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 640513001139 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 640513001140 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 640513001141 purine monophosphate binding site [chemical binding]; other site 640513001142 dimer interface [polypeptide binding]; other site 640513001143 putative catalytic residues [active] 640513001144 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 640513001145 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 640513001146 homoserine O-succinyltransferase; Provisional; Region: PRK05368 640513001147 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 640513001148 proposed active site lysine [active] 640513001149 conserved cys residue [active] 640513001150 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 640513001151 malate synthase A; Region: malate_syn_A; TIGR01344 640513001152 active site 640513001153 isocitrate lyase; Provisional; Region: PRK15063 640513001154 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 640513001155 tetramer interface [polypeptide binding]; other site 640513001156 active site 640513001157 Mg2+/Mn2+ binding site [ion binding]; other site 640513001158 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 640513001159 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 640513001160 transcriptional repressor IclR; Provisional; Region: PRK11569 640513001161 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 640513001162 Bacterial transcriptional regulator; Region: IclR; pfam01614 640513001163 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 640513001164 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 640513001165 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 640513001166 substrate binding pocket [chemical binding]; other site 640513001167 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 640513001168 B12 binding site [chemical binding]; other site 640513001169 cobalt ligand [ion binding]; other site 640513001170 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 640513001171 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 640513001172 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 640513001173 Post-segregation antitoxin CcdA; Region: CcdA; pfam07362 640513001174 CcdB protein; Region: CcdB; cl03380 640513001175 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 640513001176 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 640513001177 RNA binding surface [nucleotide binding]; other site 640513001178 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 640513001179 probable active site [active] 640513001180 hypothetical protein; Provisional; Region: PRK10515 640513001181 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 640513001182 Sodium Bile acid symporter family; Region: SBF; pfam01758 640513001183 aspartate kinase III; Validated; Region: PRK09084 640513001184 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 640513001185 nucleotide binding site [chemical binding]; other site 640513001186 substrate binding site [chemical binding]; other site 640513001187 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 640513001188 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 640513001189 dimer interface [polypeptide binding]; other site 640513001190 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 640513001191 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 640513001192 active site 640513001193 dimer interface [polypeptide binding]; other site 640513001194 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 640513001195 dimer interface [polypeptide binding]; other site 640513001196 active site 640513001197 Exopolysaccharide production protein YjbE; Region: YjbE; pfam11106 640513001198 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 640513001199 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 640513001200 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 640513001201 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 640513001202 putative trimer interface [polypeptide binding]; other site 640513001203 putative active site [active] 640513001204 putative substrate binding site [chemical binding]; other site 640513001205 putative CoA binding site [chemical binding]; other site 640513001206 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 640513001207 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640513001208 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 640513001209 dimer interface [polypeptide binding]; other site 640513001210 conserved gate region; other site 640513001211 putative PBP binding loops; other site 640513001212 ABC-ATPase subunit interface; other site 640513001213 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 640513001214 dimer interface [polypeptide binding]; other site 640513001215 conserved gate region; other site 640513001216 putative PBP binding loops; other site 640513001217 ABC-ATPase subunit interface; other site 640513001218 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 640513001219 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 640513001220 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 640513001221 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 640513001222 Walker A/P-loop; other site 640513001223 ATP binding site [chemical binding]; other site 640513001224 Q-loop/lid; other site 640513001225 ABC transporter signature motif; other site 640513001226 Walker B; other site 640513001227 D-loop; other site 640513001228 H-loop/switch region; other site 640513001229 TOBE domain; Region: TOBE_2; pfam08402 640513001230 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 640513001231 trimer interface; other site 640513001232 sugar binding site [chemical binding]; other site 640513001233 maltose regulon periplasmic protein; Provisional; Region: PRK10564 640513001234 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 640513001235 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 640513001236 UbiA prenyltransferase family; Region: UbiA; pfam01040 640513001237 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 640513001238 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 640513001239 putative acyl-acceptor binding pocket; other site 640513001240 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 640513001241 LexA repressor; Validated; Region: PRK00215 640513001242 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 640513001243 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 640513001244 Catalytic site [active] 640513001245 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 640513001246 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 640513001247 hypothetical protein; Provisional; Region: PRK10428 640513001248 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 640513001249 metal binding site 2 [ion binding]; metal-binding site 640513001250 putative DNA binding helix; other site 640513001251 metal binding site 1 [ion binding]; metal-binding site 640513001252 dimer interface [polypeptide binding]; other site 640513001253 structural Zn2+ binding site [ion binding]; other site 640513001254 Cupin domain; Region: Cupin_2; cl17218 640513001255 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 640513001256 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 640513001257 HicB family; Region: HicB; pfam05534 640513001258 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 640513001259 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 640513001260 FMN binding site [chemical binding]; other site 640513001261 active site 640513001262 catalytic residues [active] 640513001263 substrate binding site [chemical binding]; other site 640513001264 phage shock protein G; Reviewed; Region: pspG; PRK09459 640513001265 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 640513001266 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 640513001267 NADP binding site [chemical binding]; other site 640513001268 dimer interface [polypeptide binding]; other site 640513001269 replicative DNA helicase; Provisional; Region: PRK08006 640513001270 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 640513001271 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 640513001272 Walker A motif; other site 640513001273 ATP binding site [chemical binding]; other site 640513001274 Walker B motif; other site 640513001275 DNA binding loops [nucleotide binding] 640513001276 alanine racemase; Reviewed; Region: alr; PRK00053 640513001277 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 640513001278 active site 640513001279 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640513001280 substrate binding site [chemical binding]; other site 640513001281 catalytic residues [active] 640513001282 dimer interface [polypeptide binding]; other site 640513001283 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640513001284 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; cl17736 640513001285 active site 640513001286 phosphorylation site [posttranslational modification] 640513001287 intermolecular recognition site; other site 640513001288 dimerization interface [polypeptide binding]; other site 640513001289 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 640513001290 DNA binding residues [nucleotide binding] 640513001291 dimerization interface [polypeptide binding]; other site 640513001292 microbial_RNases. Ribonucleases (RNAses) cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. The alignment contains fungal RNases (U2, T1, F1, Th, Pb, N1, and Ms) and...; Region: microbial_RNases; cl00212 640513001293 active site 640513001294 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 640513001295 catalytic residues [active] 640513001296 Protein of unknown function (DUF2589); Region: DUF2589; pfam11655 640513001297 Protein of unknown function (DUF2589); Region: DUF2589; pfam11655 640513001298 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 640513001299 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 640513001300 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513001301 homodimer interface [polypeptide binding]; other site 640513001302 catalytic residue [active] 640513001303 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 640513001304 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 640513001305 active site 640513001306 motif I; other site 640513001307 motif II; other site 640513001308 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 640513001309 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 640513001310 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 640513001311 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 640513001312 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 640513001313 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 640513001314 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 640513001315 dimer interface [polypeptide binding]; other site 640513001316 ssDNA binding site [nucleotide binding]; other site 640513001317 tetramer (dimer of dimers) interface [polypeptide binding]; other site 640513001318 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 640513001319 PAS domain S-box; Region: sensory_box; TIGR00229 640513001320 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640513001321 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640513001322 metal binding site [ion binding]; metal-binding site 640513001323 active site 640513001324 I-site; other site 640513001325 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 640513001326 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 640513001327 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; cd01948 640513001328 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 640513001329 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513001330 redox-sensitivie transcriptional activator SoxR; Provisional; Region: PRK15002 640513001331 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 640513001332 DNA binding residues [nucleotide binding] 640513001333 dimer interface [polypeptide binding]; other site 640513001334 [2Fe-2S] cluster binding site [ion binding]; other site 640513001335 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640513001336 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 640513001337 putative C-terminal domain interface [polypeptide binding]; other site 640513001338 putative GSH binding site (G-site) [chemical binding]; other site 640513001339 putative dimer interface [polypeptide binding]; other site 640513001340 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 640513001341 putative N-terminal domain interface [polypeptide binding]; other site 640513001342 putative dimer interface [polypeptide binding]; other site 640513001343 putative substrate binding pocket (H-site) [chemical binding]; other site 640513001344 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 640513001345 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 640513001346 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 640513001347 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513001348 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513001349 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 640513001350 putative dimerization interface [polypeptide binding]; other site 640513001351 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 640513001352 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 640513001353 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 640513001354 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 640513001355 Na binding site [ion binding]; other site 640513001356 Predicted membrane protein [Function unknown]; Region: COG3162 640513001357 acetyl-CoA synthetase; Provisional; Region: PRK00174 640513001358 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 640513001359 active site 640513001360 CoA binding site [chemical binding]; other site 640513001361 acyl-activating enzyme (AAE) consensus motif; other site 640513001362 AMP binding site [chemical binding]; other site 640513001363 acetate binding site [chemical binding]; other site 640513001364 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 640513001365 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640513001366 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 640513001367 Sel1-like repeats; Region: SEL1; smart00671 640513001368 Hok/gef family; Region: HOK_GEF; pfam01848 640513001369 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 640513001370 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 640513001371 [4Fe-4S] binding site [ion binding]; other site 640513001372 molybdopterin cofactor binding site; other site 640513001373 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 640513001374 molybdopterin cofactor binding site; other site 640513001375 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640513001376 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 640513001377 active site 640513001378 phosphorylation site [posttranslational modification] 640513001379 intermolecular recognition site; other site 640513001380 dimerization interface [polypeptide binding]; other site 640513001381 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 640513001382 DNA binding site [nucleotide binding] 640513001383 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 640513001384 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640513001385 substrate binding site [chemical binding]; other site 640513001386 ATP binding site [chemical binding]; other site 640513001387 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 640513001388 intersubunit interface [polypeptide binding]; other site 640513001389 active site 640513001390 zinc binding site [ion binding]; other site 640513001391 Na+ binding site [ion binding]; other site 640513001392 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 640513001393 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 640513001394 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640513001395 putative ligand binding site [chemical binding]; other site 640513001396 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640513001397 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 640513001398 TM-ABC transporter signature motif; other site 640513001399 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640513001400 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640513001401 Walker A/P-loop; other site 640513001402 ATP binding site [chemical binding]; other site 640513001403 Q-loop/lid; other site 640513001404 ABC transporter signature motif; other site 640513001405 Walker B; other site 640513001406 D-loop; other site 640513001407 H-loop/switch region; other site 640513001408 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640513001409 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640513001410 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 640513001411 dimerization interface [polypeptide binding]; other site 640513001412 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 640513001413 dimer interface [polypeptide binding]; other site 640513001414 phosphorylation site [posttranslational modification] 640513001415 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 640513001416 ATP binding site [chemical binding]; other site 640513001417 Mg2+ binding site [ion binding]; other site 640513001418 G-X-G motif; other site 640513001419 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640513001420 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 640513001421 active site 640513001422 phosphorylation site [posttranslational modification] 640513001423 intermolecular recognition site; other site 640513001424 dimerization interface [polypeptide binding]; other site 640513001425 D-allose kinase; Provisional; Region: PRK09698 640513001426 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 640513001427 nucleotide binding site [chemical binding]; other site 640513001428 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 640513001429 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 640513001430 substrate binding site [chemical binding]; other site 640513001431 hexamer interface [polypeptide binding]; other site 640513001432 metal binding site [ion binding]; metal-binding site 640513001433 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640513001434 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 640513001435 TM-ABC transporter signature motif; other site 640513001436 D-allose transporter ATP-binding protein; Provisional; Region: PRK09700 640513001437 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513001438 Walker A/P-loop; other site 640513001439 ATP binding site [chemical binding]; other site 640513001440 Q-loop/lid; other site 640513001441 ABC transporter signature motif; other site 640513001442 Walker B; other site 640513001443 D-loop; other site 640513001444 H-loop/switch region; other site 640513001445 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640513001446 D-allose transporter subunit; Provisional; Region: PRK09701 640513001447 Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis; Region: PBP1_allose_binding; cd06320 640513001448 ligand binding site [chemical binding]; other site 640513001449 dimerization interface [polypeptide binding]; other site 640513001450 zinc binding site [ion binding]; other site 640513001451 DNA-binding transcriptional repressor RpiR; Provisional; Region: PRK11337 640513001452 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640513001453 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 640513001454 putative active site [active] 640513001455 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 640513001456 putative hydrolase; Provisional; Region: PRK02113 640513001457 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 640513001458 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640513001459 Coenzyme A binding pocket [chemical binding]; other site 640513001460 ribose 1,5-bisphosphokinase; Provisional; Region: PRK10078 640513001461 AAA domain; Region: AAA_18; pfam13238 640513001462 active site 640513001463 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 640513001464 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 640513001465 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 640513001466 active site 640513001467 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 640513001468 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 640513001469 Walker A/P-loop; other site 640513001470 ATP binding site [chemical binding]; other site 640513001471 Q-loop/lid; other site 640513001472 ABC transporter signature motif; other site 640513001473 Walker B; other site 640513001474 D-loop; other site 640513001475 H-loop/switch region; other site 640513001476 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 640513001477 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640513001478 Walker A/P-loop; other site 640513001479 ATP binding site [chemical binding]; other site 640513001480 Q-loop/lid; other site 640513001481 ABC transporter signature motif; other site 640513001482 Walker B; other site 640513001483 D-loop; other site 640513001484 H-loop/switch region; other site 640513001485 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640513001486 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 640513001487 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 640513001488 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 640513001489 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 640513001490 phosphonate metabolism transcriptional regulator PhnF; Provisional; Region: PRK10079 640513001491 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640513001492 DNA-binding site [nucleotide binding]; DNA binding site 640513001493 UTRA domain; Region: UTRA; pfam07702 640513001494 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 640513001495 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 640513001496 dimer interface [polypeptide binding]; other site 640513001497 conserved gate region; other site 640513001498 putative PBP binding loops; other site 640513001499 ABC-ATPase subunit interface; other site 640513001500 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 640513001501 phosphonate/organophosphate ester transporter subunit; Provisional; Region: PRK09984 640513001502 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 640513001503 Walker A/P-loop; other site 640513001504 ATP binding site [chemical binding]; other site 640513001505 Q-loop/lid; other site 640513001506 ABC transporter signature motif; other site 640513001507 Walker B; other site 640513001508 D-loop; other site 640513001509 H-loop/switch region; other site 640513001510 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 640513001511 dimer interface [polypeptide binding]; other site 640513001512 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640513001513 hypothetical protein; Provisional; Region: PRK10220 640513001514 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 640513001515 PhnA protein; Region: PhnA; pfam03831 640513001516 hypothetical protein; Provisional; Region: PRK09866 640513001517 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 640513001518 G1 box; other site 640513001519 GTP/Mg2+ binding site [chemical binding]; other site 640513001520 G2 box; other site 640513001521 Switch I region; other site 640513001522 G3 box; other site 640513001523 Switch II region; other site 640513001524 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 640513001525 G2 box; other site 640513001526 Switch I region; other site 640513001527 G3 box; other site 640513001528 Switch II region; other site 640513001529 G4 box; other site 640513001530 G5 box; other site 640513001531 YjcZ-like protein; Region: YjcZ; pfam13990 640513001532 2-keto-3-deoxygluconate permease; Region: KdgT; cl14653 640513001533 proline/glycine betaine transporter; Provisional; Region: PRK10642 640513001534 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 640513001535 putative substrate translocation pore; other site 640513001536 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 640513001537 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 640513001538 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640513001539 Helix-turn-helix domain; Region: HTH_18; pfam12833 640513001540 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640513001541 putative transcriptional regulator; Provisional; Region: PRK11640 640513001542 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 640513001543 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 640513001544 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 640513001545 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 640513001546 DsbD alpha interface [polypeptide binding]; other site 640513001547 catalytic residues [active] 640513001548 divalent-cation tolerance protein CutA; Provisional; Region: PRK10645 640513001549 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 640513001550 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 640513001551 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 640513001552 Aspartase; Region: Aspartase; cd01357 640513001553 active sites [active] 640513001554 tetramer interface [polypeptide binding]; other site 640513001555 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 640513001556 putative transporter; Provisional; Region: PRK11021 640513001557 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 640513001558 oligomerisation interface [polypeptide binding]; other site 640513001559 mobile loop; other site 640513001560 roof hairpin; other site 640513001561 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 640513001562 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 640513001563 ring oligomerisation interface [polypeptide binding]; other site 640513001564 ATP/Mg binding site [chemical binding]; other site 640513001565 stacking interactions; other site 640513001566 hinge regions; other site 640513001567 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 640513001568 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 640513001569 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 640513001570 FeS/SAM binding site; other site 640513001571 elongation factor P; Validated; Region: PRK00529 640513001572 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 640513001573 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 640513001574 RNA binding site [nucleotide binding]; other site 640513001575 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 640513001576 RNA binding site [nucleotide binding]; other site 640513001577 Predicted small secreted protein [Function unknown]; Region: COG5510 640513001578 entericidin B membrane lipoprotein; Provisional; Region: PRK10081 640513001579 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640513001580 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 640513001581 DNA binding residues [nucleotide binding] 640513001582 dimerization interface [polypeptide binding]; other site 640513001583 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 640513001584 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 640513001585 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 640513001586 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 640513001587 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 640513001588 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640513001589 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513001590 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 640513001591 dimerization interface [polypeptide binding]; other site 640513001592 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 640513001593 Iron-sulfur protein interface; other site 640513001594 proximal quinone binding site [chemical binding]; other site 640513001595 C-subunit interface; other site 640513001596 distal quinone binding site; other site 640513001597 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 640513001598 D-subunit interface [polypeptide binding]; other site 640513001599 Iron-sulfur protein interface; other site 640513001600 proximal quinone binding site [chemical binding]; other site 640513001601 distal quinone binding site [chemical binding]; other site 640513001602 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 640513001603 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 640513001604 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 640513001605 L-aspartate oxidase; Provisional; Region: PRK06175 640513001606 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 640513001607 poxB regulator PoxA; Provisional; Region: PRK09350 640513001608 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 640513001609 motif 1; other site 640513001610 dimer interface [polypeptide binding]; other site 640513001611 active site 640513001612 motif 2; other site 640513001613 motif 3; other site 640513001614 inner membrane transporter YjeM; Provisional; Region: PRK15238 640513001615 putative mechanosensitive channel protein; Provisional; Region: PRK10929 640513001616 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 640513001617 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640513001618 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 640513001619 GTPase RsgA; Reviewed; Region: PRK12288 640513001620 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 640513001621 RNA binding site [nucleotide binding]; other site 640513001622 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 640513001623 GTPase/Zn-binding domain interface [polypeptide binding]; other site 640513001624 GTP/Mg2+ binding site [chemical binding]; other site 640513001625 G4 box; other site 640513001626 G5 box; other site 640513001627 G1 box; other site 640513001628 Switch I region; other site 640513001629 G2 box; other site 640513001630 G3 box; other site 640513001631 Switch II region; other site 640513001632 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 640513001633 catalytic site [active] 640513001634 putative active site [active] 640513001635 putative substrate binding site [chemical binding]; other site 640513001636 dimer interface [polypeptide binding]; other site 640513001637 epoxyqueuosine reductase; Region: TIGR00276 640513001638 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 640513001639 putative carbohydrate kinase; Provisional; Region: PRK10565 640513001640 Uncharacterized conserved protein [Function unknown]; Region: COG0062 640513001641 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 640513001642 putative substrate binding site [chemical binding]; other site 640513001643 putative ATP binding site [chemical binding]; other site 640513001644 ADP-binding protein; Provisional; Region: PRK10646 640513001645 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 640513001646 AMIN domain; Region: AMIN; pfam11741 640513001647 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 640513001648 active site 640513001649 metal binding site [ion binding]; metal-binding site 640513001650 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 640513001651 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 640513001652 ATP binding site [chemical binding]; other site 640513001653 Mg2+ binding site [ion binding]; other site 640513001654 G-X-G motif; other site 640513001655 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 640513001656 ATP binding site [chemical binding]; other site 640513001657 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 640513001658 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 640513001659 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 640513001660 bacterial Hfq-like; Region: Hfq; cd01716 640513001661 hexamer interface [polypeptide binding]; other site 640513001662 Sm1 motif; other site 640513001663 RNA binding site [nucleotide binding]; other site 640513001664 Sm2 motif; other site 640513001665 GTPase HflX; Provisional; Region: PRK11058 640513001666 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 640513001667 HflX GTPase family; Region: HflX; cd01878 640513001668 G1 box; other site 640513001669 GTP/Mg2+ binding site [chemical binding]; other site 640513001670 Switch I region; other site 640513001671 G2 box; other site 640513001672 G3 box; other site 640513001673 Switch II region; other site 640513001674 G4 box; other site 640513001675 G5 box; other site 640513001676 FtsH protease regulator HflK; Provisional; Region: PRK10930 640513001677 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 640513001678 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 640513001679 FtsH protease regulator HflC; Provisional; Region: PRK11029 640513001680 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 640513001681 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 640513001682 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 640513001683 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 640513001684 GDP-binding site [chemical binding]; other site 640513001685 ACT binding site; other site 640513001686 IMP binding site; other site 640513001687 Predicted transcriptional regulator [Transcription]; Region: COG1959 640513001688 transcriptional repressor NsrR; Provisional; Region: PRK11014 640513001689 exoribonuclease R; Provisional; Region: PRK11642 640513001690 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 640513001691 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 640513001692 RNB domain; Region: RNB; pfam00773 640513001693 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 640513001694 RNA binding site [nucleotide binding]; other site 640513001695 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 640513001696 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 640513001697 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 640513001698 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 640513001699 metabolite-proton symporter; Region: 2A0106; TIGR00883 640513001700 putative substrate translocation pore; other site 640513001701 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 640513001702 Proteins involved in DNA damage response, similar to the AidB gene product; Region: AidB; cd01154 640513001703 FAD binding site [chemical binding]; other site 640513001704 substrate binding site [chemical binding]; other site 640513001705 catalytic residues [active] 640513001706 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 640513001707 dimerization interface [polypeptide binding]; other site 640513001708 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640513001709 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640513001710 dimer interface [polypeptide binding]; other site 640513001711 putative CheW interface [polypeptide binding]; other site 640513001712 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 640513001713 putative biofilm stress and motility protein A; Provisional; Region: PRK14864 640513001714 esterase; Provisional; Region: PRK10566 640513001715 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640513001716 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 640513001717 transcriptional repressor UlaR; Provisional; Region: PRK13509 640513001718 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 640513001719 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640513001720 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 640513001721 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 640513001722 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 640513001723 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 640513001724 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 640513001725 active site 640513001726 P-loop; other site 640513001727 phosphorylation site [posttranslational modification] 640513001728 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 640513001729 active site 640513001730 phosphorylation site [posttranslational modification] 640513001731 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 640513001732 active site 640513001733 dimer interface [polypeptide binding]; other site 640513001734 magnesium binding site [ion binding]; other site 640513001735 L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13209 640513001736 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 640513001737 AP (apurinic/apyrimidinic) site pocket; other site 640513001738 DNA interaction; other site 640513001739 Metal-binding active site; metal-binding site 640513001740 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 640513001741 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 640513001742 intersubunit interface [polypeptide binding]; other site 640513001743 active site 640513001744 Zn2+ binding site [ion binding]; other site 640513001745 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 640513001746 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 640513001747 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 640513001748 dimer interface [polypeptide binding]; other site 640513001749 ssDNA binding site [nucleotide binding]; other site 640513001750 tetramer (dimer of dimers) interface [polypeptide binding]; other site 640513001751 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 640513001752 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 640513001753 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 640513001754 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 640513001755 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640513001756 EamA-like transporter family; Region: EamA; pfam00892 640513001757 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 640513001758 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 640513001759 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 640513001760 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 640513001761 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 640513001762 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 640513001763 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 640513001764 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 640513001765 Hemerythrin-like domain; Region: Hr-like; cd12108 640513001766 Fe binding site [ion binding]; other site 640513001767 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 640513001768 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 640513001769 dimer interface [polypeptide binding]; other site 640513001770 ligand binding site [chemical binding]; other site 640513001771 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 640513001772 dimerization interface [polypeptide binding]; other site 640513001773 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640513001774 dimer interface [polypeptide binding]; other site 640513001775 putative CheW interface [polypeptide binding]; other site 640513001776 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640513001777 EamA-like transporter family; Region: EamA; pfam00892 640513001778 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640513001779 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 640513001780 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513001781 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513001782 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 640513001783 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 640513001784 NADP binding site [chemical binding]; other site 640513001785 Predicted transcriptional regulators [Transcription]; Region: COG1733 640513001786 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 640513001787 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 640513001788 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 640513001789 active site 640513001790 metal binding site [ion binding]; metal-binding site 640513001791 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 640513001792 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 640513001793 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 640513001794 active site 640513001795 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; cl17398 640513001796 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 640513001797 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 640513001798 Domain of unknown function DUF21; Region: DUF21; pfam01595 640513001799 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 640513001800 Transporter associated domain; Region: CorC_HlyC; smart01091 640513001801 methionine sulfoxide reductase A; Provisional; Region: PRK00058 640513001802 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 640513001803 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640513001804 Surface antigen; Region: Bac_surface_Ag; pfam01103 640513001805 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 640513001806 Family of unknown function (DUF490); Region: DUF490; pfam04357 640513001807 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 640513001808 putative active site pocket [active] 640513001809 dimerization interface [polypeptide binding]; other site 640513001810 putative catalytic residue [active] 640513001811 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 640513001812 dimerization interface [polypeptide binding]; other site 640513001813 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640513001814 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640513001815 dimer interface [polypeptide binding]; other site 640513001816 putative CheW interface [polypeptide binding]; other site 640513001817 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 640513001818 dimer interface [polypeptide binding]; other site 640513001819 substrate binding site [chemical binding]; other site 640513001820 metal binding sites [ion binding]; metal-binding site 640513001821 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 640513001822 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640513001823 putative ligand binding site [chemical binding]; other site 640513001824 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640513001825 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640513001826 Walker A/P-loop; other site 640513001827 ATP binding site [chemical binding]; other site 640513001828 Q-loop/lid; other site 640513001829 ABC transporter signature motif; other site 640513001830 Walker B; other site 640513001831 D-loop; other site 640513001832 H-loop/switch region; other site 640513001833 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640513001834 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640513001835 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 640513001836 TM-ABC transporter signature motif; other site 640513001837 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640513001838 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 640513001839 TM-ABC transporter signature motif; other site 640513001840 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 640513001841 dimer interface [polypeptide binding]; other site 640513001842 ligand binding site [chemical binding]; other site 640513001843 HAMP domain; Region: HAMP; pfam00672 640513001844 dimerization interface [polypeptide binding]; other site 640513001845 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640513001846 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640513001847 dimer interface [polypeptide binding]; other site 640513001848 putative CheW interface [polypeptide binding]; other site 640513001849 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513001850 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513001851 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 640513001852 AMP binding site [chemical binding]; other site 640513001853 metal binding site [ion binding]; metal-binding site 640513001854 active site 640513001855 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 640513001856 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 640513001857 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640513001858 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640513001859 hypothetical protein; Provisional; Region: PRK05255 640513001860 peptidase PmbA; Provisional; Region: PRK11040 640513001861 cytochrome b562; Provisional; Region: PRK15058 640513001862 PRD domain protein EF_0829/AHA_3910; Region: EF_0829; TIGR03582 640513001863 Glycine-rich SFCGS; Region: Gly_rich_SFCGS; pfam14272 640513001864 conserved hypothetical protein EF_0831/AHA_3912; Region: EF_0831; TIGR03578 640513001865 conserved hypothetical protein EF_0832/AHA_3913; Region: EF_0832; TIGR03580 640513001866 conserved hypothetical protein EF_0833/AHA_3914; Region: EF_0833; TIGR03579 640513001867 dihydroorotase; Provisional; Region: PRK09237 640513001868 Metallo-dependent hydrolases, subgroup B is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_B; cd01307 640513001869 active site 640513001870 uncharacterized pyridoxal phosphate-dependent enzyme; Region: selA_rel; TIGR01437 640513001871 conserved hypothetical protein EF_0839/AHA_3917; Region: EF_0839; TIGR03581 640513001872 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 640513001873 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 640513001874 HTH domain; Region: HTH_11; pfam08279 640513001875 Mga helix-turn-helix domain; Region: Mga; pfam05043 640513001876 PRD domain; Region: PRD; pfam00874 640513001877 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 640513001878 active site 640513001879 P-loop; other site 640513001880 phosphorylation site [posttranslational modification] 640513001881 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 640513001882 active site 640513001883 phosphorylation site [posttranslational modification] 640513001884 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 640513001885 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 640513001886 FeS/SAM binding site; other site 640513001887 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 640513001888 ATP cone domain; Region: ATP-cone; pfam03477 640513001889 Class III ribonucleotide reductase; Region: RNR_III; cd01675 640513001890 effector binding site; other site 640513001891 active site 640513001892 Zn binding site [ion binding]; other site 640513001893 glycine loop; other site 640513001894 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 640513001895 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 640513001896 Ca binding site [ion binding]; other site 640513001897 active site 640513001898 catalytic site [active] 640513001899 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 640513001900 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 640513001901 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 640513001902 active site turn [active] 640513001903 phosphorylation site [posttranslational modification] 640513001904 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 640513001905 trehalose repressor; Provisional; Region: treR; PRK09492 640513001906 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640513001907 DNA binding site [nucleotide binding] 640513001908 domain linker motif; other site 640513001909 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 640513001910 dimerization interface [polypeptide binding]; other site 640513001911 ligand binding site [chemical binding]; other site 640513001912 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 640513001913 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 640513001914 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640513001915 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 640513001916 Soluble P-type ATPase [General function prediction only]; Region: COG4087 640513001917 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 640513001918 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 640513001919 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 640513001920 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 640513001921 active site 640513001922 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 640513001923 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 640513001924 homotrimer interaction site [polypeptide binding]; other site 640513001925 putative active site [active] 640513001926 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 640513001927 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 640513001928 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 640513001929 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 640513001930 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 640513001931 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 640513001932 Arginine repressor [Transcription]; Region: ArgR; COG1438 640513001933 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 640513001934 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 640513001935 Predicted membrane protein [Function unknown]; Region: COG1288 640513001936 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 640513001937 ornithine carbamoyltransferase; Validated; Region: PRK02102 640513001938 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 640513001939 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 640513001940 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 640513001941 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 640513001942 putative substrate binding site [chemical binding]; other site 640513001943 nucleotide binding site [chemical binding]; other site 640513001944 nucleotide binding site [chemical binding]; other site 640513001945 homodimer interface [polypeptide binding]; other site 640513001946 arginine deiminase; Provisional; Region: PRK01388 640513001947 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 640513001948 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 640513001949 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 640513001950 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 640513001951 RNase E inhibitor protein; Provisional; Region: PRK11191 640513001952 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 640513001953 active site 640513001954 dinuclear metal binding site [ion binding]; other site 640513001955 dimerization interface [polypeptide binding]; other site 640513001956 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 640513001957 Domain of unknown function (DUF1832); Region: DUF1832; pfam08870 640513001958 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 640513001959 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513001960 Walker A/P-loop; other site 640513001961 ATP binding site [chemical binding]; other site 640513001962 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513001963 Q-loop/lid; other site 640513001964 ABC transporter signature motif; other site 640513001965 Walker B; other site 640513001966 D-loop; other site 640513001967 H-loop/switch region; other site 640513001968 putative sulfurtransferase DndC; Region: DNA_S_dndC; TIGR03183 640513001969 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 640513001970 Active Sites [active] 640513001971 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 640513001972 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 640513001973 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640513001974 catalytic residue [active] 640513001975 Restriction endonuclease; Region: Mrr_cat; pfam04471 640513001976 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; cl07446 640513001977 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 640513001978 PAAR motif; Region: PAAR_motif; pfam05488 640513001979 S-type Pyocin; Region: Pyocin_S; pfam06958 640513001980 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 640513001981 active site 640513001982 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 640513001983 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 640513001984 active site 640513001985 HIGH motif; other site 640513001986 dimer interface [polypeptide binding]; other site 640513001987 KMSKS motif; other site 640513001988 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 640513001989 FosA, a Fosfomycin resistance protein, catalyzes the addition of glutathione to the antibiotic fosfomycin, making it inactive; Region: FosA; cd07244 640513001990 dimer interface [polypeptide binding]; other site 640513001991 Mn binding site [ion binding]; other site 640513001992 K binding site [ion binding]; other site 640513001993 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 640513001994 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; cd00599 640513001995 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 640513001996 active site 640513001997 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 640513001998 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 640513001999 oligomer interface [polypeptide binding]; other site 640513002000 active site residues [active] 640513002001 Bacterial SH3 domain; Region: SH3_3; cl17532 640513002002 Uncharacterized conserved protein [Function unknown]; Region: COG2850 640513002003 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 640513002004 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 640513002005 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640513002006 DNA-binding site [nucleotide binding]; DNA binding site 640513002007 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 640513002008 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513002009 homodimer interface [polypeptide binding]; other site 640513002010 catalytic residue [active] 640513002011 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 640513002012 Uncharacterized conserved protein [Function unknown]; Region: COG2128 640513002013 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513002014 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513002015 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 640513002016 putative effector binding pocket; other site 640513002017 putative dimerization interface [polypeptide binding]; other site 640513002018 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 640513002019 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640513002020 NAD binding site [chemical binding]; other site 640513002021 catalytic residues [active] 640513002022 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 640513002023 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 640513002024 dimerization interface [polypeptide binding]; other site 640513002025 putative DNA binding site [nucleotide binding]; other site 640513002026 putative Zn2+ binding site [ion binding]; other site 640513002027 transcriptional regulator SlyA; Provisional; Region: PRK03573 640513002028 MarR family; Region: MarR_2; cl17246 640513002029 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 640513002030 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 640513002031 carboxyltransferase (CT) interaction site; other site 640513002032 biotinylation site [posttranslational modification]; other site 640513002033 HlyD family secretion protein; Region: HlyD_3; pfam13437 640513002034 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 640513002035 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 640513002036 Protein of unknown function (DUF445); Region: DUF445; pfam04286 640513002037 AAA domain; Region: AAA_21; pfam13304 640513002038 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513002039 Q-loop/lid; other site 640513002040 ABC transporter signature motif; other site 640513002041 Walker B; other site 640513002042 D-loop; other site 640513002043 H-loop/switch region; other site 640513002044 YfaZ precursor; Region: YfaZ; pfam07437 640513002045 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 640513002046 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 640513002047 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 640513002048 P-loop, Walker A motif; other site 640513002049 Base recognition motif; other site 640513002050 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 640513002051 Uncharacterized small protein [Function unknown]; Region: COG2879 640513002052 carbon starvation protein A; Provisional; Region: PRK15015 640513002053 Carbon starvation protein CstA; Region: CstA; pfam02554 640513002054 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 640513002055 Predicted transcriptional regulator [Transcription]; Region: COG2378 640513002056 HTH domain; Region: HTH_11; cl17392 640513002057 WYL domain; Region: WYL; pfam13280 640513002058 4-hydroxyphenylacetate 3-monooxygenase reductase subunit; Provisional; Region: hpaC; PRK15486 640513002059 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 640513002060 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 640513002061 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 640513002062 Cupin domain; Region: Cupin_2; pfam07883 640513002063 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513002064 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640513002065 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 640513002066 putative substrate translocation pore; other site 640513002067 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 640513002068 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 640513002069 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 640513002070 putative substrate binding pocket [chemical binding]; other site 640513002071 trimer interface [polypeptide binding]; other site 640513002072 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 640513002073 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 640513002074 putative active site [active] 640513002075 putative metal binding site [ion binding]; other site 640513002076 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 640513002077 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 640513002078 NAD binding site [chemical binding]; other site 640513002079 catalytic residues [active] 640513002080 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase; Provisional; Region: PRK15203 640513002081 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 640513002082 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640513002083 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 640513002084 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640513002085 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 640513002086 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 640513002087 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640513002088 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640513002089 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 640513002090 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 640513002091 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 640513002092 PAS fold; Region: PAS_4; pfam08448 640513002093 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640513002094 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513002095 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640513002096 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640513002097 inhibitor site; inhibition site 640513002098 active site 640513002099 dimer interface [polypeptide binding]; other site 640513002100 catalytic residue [active] 640513002101 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 640513002102 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 640513002103 dimer interface [polypeptide binding]; other site 640513002104 NADP binding site [chemical binding]; other site 640513002105 catalytic residues [active] 640513002106 amino acid transporter; Region: 2A0306; TIGR00909 640513002107 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 640513002108 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 640513002109 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 640513002110 dimer interface [polypeptide binding]; other site 640513002111 ligand binding site [chemical binding]; other site 640513002112 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 640513002113 dimerization interface [polypeptide binding]; other site 640513002114 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640513002115 dimer interface [polypeptide binding]; other site 640513002116 putative CheW interface [polypeptide binding]; other site 640513002117 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 640513002118 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640513002119 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 640513002120 Coenzyme A binding pocket [chemical binding]; other site 640513002121 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 640513002122 D-galactonate transporter; Region: 2A0114; TIGR00893 640513002123 putative substrate translocation pore; other site 640513002124 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640513002125 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640513002126 DNA-binding site [nucleotide binding]; DNA binding site 640513002127 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640513002128 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640513002129 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 640513002130 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 640513002131 putative NAD(P) binding site [chemical binding]; other site 640513002132 catalytic Zn binding site [ion binding]; other site 640513002133 structural Zn binding site [ion binding]; other site 640513002134 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640513002135 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; pfam00486 640513002136 DNA binding site [nucleotide binding] 640513002137 Uncharacterized secreted protein [Function unknown]; Region: COG5430 640513002138 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 640513002139 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 640513002140 PapC C-terminal domain; Region: PapC_C; pfam13953 640513002141 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 640513002142 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 640513002143 Uncharacterized secreted protein [Function unknown]; Region: COG5430 640513002144 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640513002145 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 640513002146 DNA binding residues [nucleotide binding] 640513002147 dimerization interface [polypeptide binding]; other site 640513002148 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 640513002149 phosphoglycerol transferase I; Provisional; Region: PRK03776 640513002150 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 640513002151 hypothetical protein; Provisional; Region: PRK11667 640513002152 DNA replication protein DnaC; Validated; Region: PRK07952 640513002153 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 640513002154 Walker A motif; other site 640513002155 ATP binding site [chemical binding]; other site 640513002156 Walker B motif; other site 640513002157 primosomal protein DnaI; Provisional; Region: PRK02854 640513002158 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 640513002159 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640513002160 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 640513002161 putative DNA binding site [nucleotide binding]; other site 640513002162 putative Zn2+ binding site [ion binding]; other site 640513002163 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 640513002164 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640513002165 hypothetical protein; Provisional; Region: PRK09917 640513002166 Uncharacterized conserved protein [Function unknown]; Region: COG2966 640513002167 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 640513002168 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640513002169 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 640513002170 DNA binding residues [nucleotide binding] 640513002171 dimerization interface [polypeptide binding]; other site 640513002172 DNA-binding transcriptional activator BglJ; Provisional; Region: PRK11475 640513002173 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 640513002174 DNA binding residues [nucleotide binding] 640513002175 dimerization interface [polypeptide binding]; other site 640513002176 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 640513002177 putative deacylase active site [active] 640513002178 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 640513002179 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 640513002180 ferric iron reductase involved in ferric hydroximate transport; Provisional; Region: PRK10647 640513002181 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 640513002182 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 640513002183 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640513002184 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640513002185 metal binding site [ion binding]; metal-binding site 640513002186 active site 640513002187 I-site; other site 640513002188 Protein of unknown function (DUF1435); Region: DUF1435; pfam07256 640513002189 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 640513002190 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 640513002191 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 640513002192 S-adenosylmethionine binding site [chemical binding]; other site 640513002193 DNA polymerase III subunit psi; Validated; Region: PRK06856 640513002194 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 640513002195 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 640513002196 dUMP phosphatase; Provisional; Region: PRK09449 640513002197 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 640513002198 motif II; other site 640513002199 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 640513002200 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 640513002201 G1 box; other site 640513002202 putative GEF interaction site [polypeptide binding]; other site 640513002203 GTP/Mg2+ binding site [chemical binding]; other site 640513002204 Switch I region; other site 640513002205 G2 box; other site 640513002206 G3 box; other site 640513002207 Switch II region; other site 640513002208 G4 box; other site 640513002209 G5 box; other site 640513002210 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 640513002211 periplasmic protein; Provisional; Region: PRK10568 640513002212 BON domain; Region: BON; pfam04972 640513002213 BON domain; Region: BON; pfam04972 640513002214 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 640513002215 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 640513002216 active site 640513002217 nucleophile elbow; other site 640513002218 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 640513002219 active site 640513002220 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 640513002221 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 640513002222 hypothetical protein; Provisional; Region: PRK10977 640513002223 Pyruvate formate lyase; Region: PFL; pfam02901 640513002224 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 640513002225 intersubunit interface [polypeptide binding]; other site 640513002226 active site 640513002227 catalytic residue [active] 640513002228 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 640513002229 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 640513002230 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 640513002231 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 640513002232 phosphopentomutase; Provisional; Region: PRK05362 640513002233 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 640513002234 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 640513002235 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 640513002236 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 640513002237 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 640513002238 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 640513002239 hypothetical protein; Provisional; Region: PRK11246 640513002240 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 640513002241 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 640513002242 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 640513002243 motif II; other site 640513002244 DNA repair protein RadA; Region: sms; TIGR00416 640513002245 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 640513002246 Walker A motif/ATP binding site; other site 640513002247 ATP binding site [chemical binding]; other site 640513002248 Walker B motif; other site 640513002249 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 640513002250 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 640513002251 non-specific DNA binding site [nucleotide binding]; other site 640513002252 salt bridge; other site 640513002253 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 640513002254 sequence-specific DNA binding site [nucleotide binding]; other site 640513002255 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 640513002256 active site 640513002257 (T/H)XGH motif; other site 640513002258 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 640513002259 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 640513002260 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 640513002261 putative NAD(P) binding site [chemical binding]; other site 640513002262 dimer interface [polypeptide binding]; other site 640513002263 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513002264 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513002265 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 640513002266 putative effector binding pocket; other site 640513002267 dimerization interface [polypeptide binding]; other site 640513002268 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 640513002269 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640513002270 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640513002271 ABC transporter; Region: ABC_tran_2; pfam12848 640513002272 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640513002273 lytic murein transglycosylase; Provisional; Region: PRK11619 640513002274 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 640513002275 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640513002276 catalytic residue [active] 640513002277 Trp operon repressor; Provisional; Region: PRK01381 640513002278 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 640513002279 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 640513002280 catalytic core [active] 640513002281 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 640513002282 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513002283 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 640513002284 hypothetical protein; Provisional; Region: PRK10756 640513002285 CreA protein; Region: CreA; pfam05981 640513002286 DNA-binding response regulator CreB; Provisional; Region: PRK11083 640513002287 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 640513002288 active site 640513002289 phosphorylation site [posttranslational modification] 640513002290 intermolecular recognition site; other site 640513002291 dimerization interface [polypeptide binding]; other site 640513002292 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 640513002293 DNA binding site [nucleotide binding] 640513002294 sensory histidine kinase CreC; Provisional; Region: PRK11100 640513002295 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 640513002296 dimerization interface [polypeptide binding]; other site 640513002297 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 640513002298 dimer interface [polypeptide binding]; other site 640513002299 phosphorylation site [posttranslational modification] 640513002300 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 640513002301 ATP binding site [chemical binding]; other site 640513002302 Mg2+ binding site [ion binding]; other site 640513002303 G-X-G motif; other site 640513002304 Inner membrane protein CreD; Region: CreD; cl01844 640513002305 two-component response regulator; Provisional; Region: PRK11173 640513002306 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 640513002307 active site 640513002308 phosphorylation site [posttranslational modification] 640513002309 intermolecular recognition site; other site 640513002310 dimerization interface [polypeptide binding]; other site 640513002311 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 640513002312 DNA binding site [nucleotide binding] 640513002313 putative RNA methyltransferase; Provisional; Region: PRK10433 640513002314 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 640513002315 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 640513002316 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 640513002317 putative catalytic residues [active] 640513002318 putative nucleotide binding site [chemical binding]; other site 640513002319 putative aspartate binding site [chemical binding]; other site 640513002320 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 640513002321 dimer interface [polypeptide binding]; other site 640513002322 putative threonine allosteric regulatory site; other site 640513002323 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 640513002324 putative threonine allosteric regulatory site; other site 640513002325 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 640513002326 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 640513002327 homoserine kinase; Provisional; Region: PRK01212 640513002328 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 640513002329 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 640513002330 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 640513002331 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513002332 catalytic residue [active] 640513002333 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 640513002334 hypothetical protein; Validated; Region: PRK02101 640513002335 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 640513002336 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 640513002337 transaldolase-like protein; Provisional; Region: PTZ00411 640513002338 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 640513002339 active site 640513002340 dimer interface [polypeptide binding]; other site 640513002341 catalytic residue [active] 640513002342 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 640513002343 MPT binding site; other site 640513002344 trimer interface [polypeptide binding]; other site 640513002345 metabolite-proton symporter; Region: 2A0106; TIGR00883 640513002346 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 640513002347 putative substrate translocation pore; other site 640513002348 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 640513002349 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 640513002350 dimer interface [polypeptide binding]; other site 640513002351 conserved gate region; other site 640513002352 putative PBP binding loops; other site 640513002353 ABC-ATPase subunit interface; other site 640513002354 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640513002355 tungstate ABC transporter binding protein WtpA; Region: tungstate_WtpA; TIGR03730 640513002356 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 640513002357 intersubunit interface [polypeptide binding]; other site 640513002358 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 640513002359 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 640513002360 Walker A/P-loop; other site 640513002361 ATP binding site [chemical binding]; other site 640513002362 Q-loop/lid; other site 640513002363 ABC transporter signature motif; other site 640513002364 Walker B; other site 640513002365 D-loop; other site 640513002366 H-loop/switch region; other site 640513002367 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 640513002368 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 640513002369 ABC-ATPase subunit interface; other site 640513002370 dimer interface [polypeptide binding]; other site 640513002371 putative PBP binding regions; other site 640513002372 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 640513002373 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 640513002374 putative ion selectivity filter; other site 640513002375 putative pore gating glutamate residue; other site 640513002376 hypothetical protein; Provisional; Region: PRK10659 640513002377 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 640513002378 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 640513002379 nucleotide binding site [chemical binding]; other site 640513002380 chaperone protein DnaJ; Provisional; Region: PRK10767 640513002381 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 640513002382 HSP70 interaction site [polypeptide binding]; other site 640513002383 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 640513002384 substrate binding site [polypeptide binding]; other site 640513002385 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 640513002386 Zn binding sites [ion binding]; other site 640513002387 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 640513002388 dimer interface [polypeptide binding]; other site 640513002389 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 640513002390 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 640513002391 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513002392 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 640513002393 putative dimerization interface [polypeptide binding]; other site 640513002394 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 640513002395 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 640513002396 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 640513002397 active site 640513002398 Riboflavin kinase; Region: Flavokinase; smart00904 640513002399 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 640513002400 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 640513002401 HIGH motif; other site 640513002402 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 640513002403 active site 640513002404 KMSKS motif; other site 640513002405 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 640513002406 tRNA binding surface [nucleotide binding]; other site 640513002407 anticodon binding site; other site 640513002408 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 640513002409 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 640513002410 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 640513002411 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 640513002412 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 640513002413 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 640513002414 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 640513002415 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 640513002416 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 640513002417 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 640513002418 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 640513002419 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 640513002420 catalytic site [active] 640513002421 subunit interface [polypeptide binding]; other site 640513002422 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 640513002423 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640513002424 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 640513002425 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 640513002426 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640513002427 ATP-grasp domain; Region: ATP-grasp_4; cl17255 640513002428 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 640513002429 IMP binding site; other site 640513002430 dimer interface [polypeptide binding]; other site 640513002431 interdomain contacts; other site 640513002432 partial ornithine binding site; other site 640513002433 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 640513002434 Domain of unknown function (DUF386); Region: DUF386; cl01047 640513002435 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 640513002436 ATP-binding site [chemical binding]; other site 640513002437 Gluconate-6-phosphate binding site [chemical binding]; other site 640513002438 Shikimate kinase; Region: SKI; pfam01202 640513002439 gluconate 5-dehydrogenase; Provisional; Region: PRK08085 640513002440 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 640513002441 NADP binding site [chemical binding]; other site 640513002442 homodimer interface [polypeptide binding]; other site 640513002443 active site 640513002444 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 640513002445 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640513002446 DNA binding site [nucleotide binding] 640513002447 domain linker motif; other site 640513002448 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 640513002449 putative ligand binding site [chemical binding]; other site 640513002450 putative dimerization interface [polypeptide binding]; other site 640513002451 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 640513002452 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 640513002453 putative ligand binding site [chemical binding]; other site 640513002454 NAD binding site [chemical binding]; other site 640513002455 catalytic site [active] 640513002456 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 640513002457 D-galactonate transporter; Region: 2A0114; TIGR00893 640513002458 putative substrate translocation pore; other site 640513002459 glutathione-regulated potassium-efflux system ancillary protein KefF; Provisional; Region: PRK00871 640513002460 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 640513002461 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 640513002462 TrkA-N domain; Region: TrkA_N; pfam02254 640513002463 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 640513002464 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 640513002465 folate binding site [chemical binding]; other site 640513002466 NADP+ binding site [chemical binding]; other site 640513002467 bis(5'-nucleosyl)-tetraphosphatase (symmetrical); Region: apaH; TIGR00668 640513002468 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 640513002469 active site 640513002470 metal binding site [ion binding]; metal-binding site 640513002471 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 640513002472 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 640513002473 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 640513002474 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 640513002475 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 640513002476 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 640513002477 SurA N-terminal domain; Region: SurA_N; pfam09312 640513002478 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 640513002479 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 640513002480 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 640513002481 OstA-like protein; Region: OstA; pfam03968 640513002482 Organic solvent tolerance protein; Region: OstA_C; pfam04453 640513002483 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 640513002484 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 640513002485 putative metal binding site [ion binding]; other site 640513002486 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 640513002487 HSP70 interaction site [polypeptide binding]; other site 640513002488 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 640513002489 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 640513002490 active site 640513002491 ATP-dependent helicase HepA; Validated; Region: PRK04914 640513002492 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 640513002493 ATP binding site [chemical binding]; other site 640513002494 putative Mg++ binding site [ion binding]; other site 640513002495 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 640513002496 nucleotide binding region [chemical binding]; other site 640513002497 ATP-binding site [chemical binding]; other site 640513002498 DNA polymerase II; Reviewed; Region: PRK05762 640513002499 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 640513002500 active site 640513002501 catalytic site [active] 640513002502 substrate binding site [chemical binding]; other site 640513002503 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 640513002504 active site 640513002505 metal-binding site 640513002506 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 640513002507 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 640513002508 intersubunit interface [polypeptide binding]; other site 640513002509 active site 640513002510 Zn2+ binding site [ion binding]; other site 640513002511 L-arabinose isomerase; Provisional; Region: PRK02929 640513002512 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 640513002513 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 640513002514 trimer interface [polypeptide binding]; other site 640513002515 putative substrate binding site [chemical binding]; other site 640513002516 putative metal binding site [ion binding]; other site 640513002517 ribulokinase; Provisional; Region: PRK04123 640513002518 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 640513002519 N- and C-terminal domain interface [polypeptide binding]; other site 640513002520 active site 640513002521 MgATP binding site [chemical binding]; other site 640513002522 catalytic site [active] 640513002523 metal binding site [ion binding]; metal-binding site 640513002524 carbohydrate binding site [chemical binding]; other site 640513002525 homodimer interface [polypeptide binding]; other site 640513002526 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 640513002527 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640513002528 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513002529 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513002530 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 640513002531 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 640513002532 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 640513002533 ATP-binding cassette domain of the thiamine transport system; Region: ABC_ThiQ_thiamine_transporter; cd03298 640513002534 Walker A/P-loop; other site 640513002535 ATP binding site [chemical binding]; other site 640513002536 Q-loop/lid; other site 640513002537 ABC transporter signature motif; other site 640513002538 Walker B; other site 640513002539 D-loop; other site 640513002540 H-loop/switch region; other site 640513002541 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 640513002542 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 640513002543 dimer interface [polypeptide binding]; other site 640513002544 conserved gate region; other site 640513002545 putative PBP binding loops; other site 640513002546 ABC-ATPase subunit interface; other site 640513002547 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 640513002548 dimer interface [polypeptide binding]; other site 640513002549 conserved gate region; other site 640513002550 putative PBP binding loops; other site 640513002551 ABC-ATPase subunit interface; other site 640513002552 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 640513002553 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 640513002554 transcriptional regulator SgrR; Provisional; Region: PRK13626 640513002555 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 640513002556 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 640513002557 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 640513002558 sugar efflux transporter; Region: 2A0120; TIGR00899 640513002559 putative substrate translocation pore; other site 640513002560 Hok/gef family; Region: HOK_GEF; pfam01848 640513002561 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 640513002562 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 640513002563 substrate binding site [chemical binding]; other site 640513002564 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 640513002565 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 640513002566 substrate binding site [chemical binding]; other site 640513002567 ligand binding site [chemical binding]; other site 640513002568 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 640513002569 tartrate dehydrogenase; Region: TTC; TIGR02089 640513002570 2-isopropylmalate synthase; Validated; Region: PRK00915 640513002571 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 640513002572 active site 640513002573 catalytic residues [active] 640513002574 metal binding site [ion binding]; metal-binding site 640513002575 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 640513002576 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 640513002577 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513002578 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 640513002579 putative substrate binding pocket [chemical binding]; other site 640513002580 putative dimerization interface [polypeptide binding]; other site 640513002581 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 640513002582 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640513002583 PYR/PP interface [polypeptide binding]; other site 640513002584 dimer interface [polypeptide binding]; other site 640513002585 TPP binding site [chemical binding]; other site 640513002586 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640513002587 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 640513002588 TPP-binding site [chemical binding]; other site 640513002589 dimer interface [polypeptide binding]; other site 640513002590 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 640513002591 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 640513002592 putative valine binding site [chemical binding]; other site 640513002593 dimer interface [polypeptide binding]; other site 640513002594 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 640513002595 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 640513002596 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640513002597 DNA binding site [nucleotide binding] 640513002598 domain linker motif; other site 640513002599 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 640513002600 dimerization interface [polypeptide binding]; other site 640513002601 ligand binding site [chemical binding]; other site 640513002602 mraZ protein; Region: TIGR00242 640513002603 MraZ protein; Region: MraZ; pfam02381 640513002604 MraZ protein; Region: MraZ; pfam02381 640513002605 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Region: TIGR00006 640513002606 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 640513002607 cell division protein FtsL; Provisional; Region: PRK10772 640513002608 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 640513002609 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 640513002610 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 640513002611 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 640513002612 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 640513002613 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640513002614 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640513002615 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 640513002616 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 640513002617 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640513002618 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640513002619 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 640513002620 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 640513002621 Mg++ binding site [ion binding]; other site 640513002622 putative catalytic motif [active] 640513002623 putative substrate binding site [chemical binding]; other site 640513002624 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 640513002625 Protein of unknown function (DUF2453); Region: DUF2453; pfam10507 640513002626 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640513002627 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640513002628 cell division protein FtsW; Provisional; Region: PRK10774 640513002629 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 640513002630 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 640513002631 active site 640513002632 homodimer interface [polypeptide binding]; other site 640513002633 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 640513002634 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 640513002635 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640513002636 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640513002637 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 640513002638 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 640513002639 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 640513002640 cell division protein FtsQ; Provisional; Region: PRK10775 640513002641 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 640513002642 Cell division protein FtsQ; Region: FtsQ; pfam03799 640513002643 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 640513002644 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 640513002645 Cell division protein FtsA; Region: FtsA; pfam14450 640513002646 cell division protein FtsZ; Validated; Region: PRK09330 640513002647 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 640513002648 nucleotide binding site [chemical binding]; other site 640513002649 SulA interaction site; other site 640513002650 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 640513002651 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 640513002652 SecA regulator SecM; Provisional; Region: PRK02943 640513002653 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 640513002654 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 640513002655 SEC-C motif; Region: SEC-C; pfam02810 640513002656 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 640513002657 active site 640513002658 8-oxo-dGMP binding site [chemical binding]; other site 640513002659 nudix motif; other site 640513002660 metal binding site [ion binding]; metal-binding site 640513002661 DNA gyrase inhibitor; Reviewed; Region: PRK00418 640513002662 hypothetical protein; Provisional; Region: PRK05287 640513002663 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 640513002664 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 640513002665 CoA-binding site [chemical binding]; other site 640513002666 ATP-binding [chemical binding]; other site 640513002667 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 640513002668 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 640513002669 active site 640513002670 type IV pilin biogenesis protein; Provisional; Region: PRK10573 640513002671 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640513002672 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640513002673 hypothetical protein; Provisional; Region: PRK10436 640513002674 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 640513002675 Walker A motif; other site 640513002676 ATP binding site [chemical binding]; other site 640513002677 Walker B motif; other site 640513002678 putative major pilin subunit; Provisional; Region: PRK10574 640513002679 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 640513002680 Pilin (bacterial filament); Region: Pilin; pfam00114 640513002681 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 640513002682 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 640513002683 dimerization interface [polypeptide binding]; other site 640513002684 active site 640513002685 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 640513002686 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 640513002687 amidase catalytic site [active] 640513002688 Zn binding residues [ion binding]; other site 640513002689 substrate binding site [chemical binding]; other site 640513002690 regulatory protein AmpE; Provisional; Region: PRK10987 640513002691 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 640513002692 active site 640513002693 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 640513002694 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 640513002695 putative substrate translocation pore; other site 640513002696 aromatic amino acid transporter; Provisional; Region: PRK10238 640513002697 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 640513002698 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640513002699 DNA-binding site [nucleotide binding]; DNA binding site 640513002700 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640513002701 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 640513002702 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 640513002703 dimer interface [polypeptide binding]; other site 640513002704 TPP-binding site [chemical binding]; other site 640513002705 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 640513002706 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 640513002707 E3 interaction surface; other site 640513002708 lipoyl attachment site [posttranslational modification]; other site 640513002709 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 640513002710 E3 interaction surface; other site 640513002711 lipoyl attachment site [posttranslational modification]; other site 640513002712 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 640513002713 E3 interaction surface; other site 640513002714 lipoyl attachment site [posttranslational modification]; other site 640513002715 e3 binding domain; Region: E3_binding; pfam02817 640513002716 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 640513002717 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 640513002718 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640513002719 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640513002720 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 640513002721 conjugal transfer surface exclusion protein TraT; Provisional; Region: PRK13731 640513002722 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 640513002723 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 640513002724 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 640513002725 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 640513002726 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 640513002727 substrate binding site [chemical binding]; other site 640513002728 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 640513002729 substrate binding site [chemical binding]; other site 640513002730 ligand binding site [chemical binding]; other site 640513002731 hypothetical protein; Provisional; Region: PRK05248 640513002732 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 640513002733 spermidine synthase; Provisional; Region: PRK00811 640513002734 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 640513002735 S-adenosylmethionine binding site [chemical binding]; other site 640513002736 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 640513002737 multicopper oxidase; Provisional; Region: PRK10965 640513002738 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 640513002739 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 640513002740 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 640513002741 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 640513002742 Trp docking motif [polypeptide binding]; other site 640513002743 putative active site [active] 640513002744 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640513002745 active site 640513002746 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 640513002747 active site clefts [active] 640513002748 zinc binding site [ion binding]; other site 640513002749 dimer interface [polypeptide binding]; other site 640513002750 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 640513002751 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 640513002752 Walker A/P-loop; other site 640513002753 ATP binding site [chemical binding]; other site 640513002754 Q-loop/lid; other site 640513002755 ABC transporter signature motif; other site 640513002756 Walker B; other site 640513002757 D-loop; other site 640513002758 H-loop/switch region; other site 640513002759 inner membrane transport permease; Provisional; Region: PRK15066 640513002760 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 640513002761 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 640513002762 active pocket/dimerization site; other site 640513002763 active site 640513002764 phosphorylation site [posttranslational modification] 640513002765 Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and similar proteins; Region: CE4_yadE_5s; cd10966 640513002766 putative active site [active] 640513002767 putative metal binding site [ion binding]; other site 640513002768 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 640513002769 tetramerization interface [polypeptide binding]; other site 640513002770 active site 640513002771 pantoate--beta-alanine ligase; Region: panC; TIGR00018 640513002772 Pantoate-beta-alanine ligase; Region: PanC; cd00560 640513002773 active site 640513002774 ATP-binding site [chemical binding]; other site 640513002775 pantoate-binding site; other site 640513002776 HXXH motif; other site 640513002777 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 640513002778 oligomerization interface [polypeptide binding]; other site 640513002779 active site 640513002780 metal binding site [ion binding]; metal-binding site 640513002781 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 640513002782 catalytic center binding site [active] 640513002783 ATP binding site [chemical binding]; other site 640513002784 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 640513002785 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 640513002786 active site 640513002787 NTP binding site [chemical binding]; other site 640513002788 metal binding triad [ion binding]; metal-binding site 640513002789 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 640513002790 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 640513002791 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 640513002792 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 640513002793 active site 640513002794 HIGH motif; other site 640513002795 nucleotide binding site [chemical binding]; other site 640513002796 KMSKS motif; other site 640513002797 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 640513002798 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 640513002799 2'-5' RNA ligase; Provisional; Region: PRK15124 640513002800 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 640513002801 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 640513002802 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 640513002803 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 640513002804 ATP binding site [chemical binding]; other site 640513002805 putative Mg++ binding site [ion binding]; other site 640513002806 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 640513002807 nucleotide binding region [chemical binding]; other site 640513002808 ATP-binding site [chemical binding]; other site 640513002809 Helicase associated domain (HA2); Region: HA2; cl04503 640513002810 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 640513002811 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 640513002812 Transglycosylase; Region: Transgly; pfam00912 640513002813 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 640513002814 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 640513002815 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 640513002816 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 640513002817 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 640513002818 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 640513002819 PapC N-terminal domain; Region: PapC_N; pfam13954 640513002820 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 640513002821 PapC C-terminal domain; Region: PapC_C; pfam13953 640513002822 putative major fimbrial protein SthE; Provisional; Region: PRK15292 640513002823 Fimbrial protein; Region: Fimbrial; pfam00419 640513002824 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 640513002825 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 640513002826 N-terminal plug; other site 640513002827 ligand-binding site [chemical binding]; other site 640513002828 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 640513002829 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 640513002830 Walker A/P-loop; other site 640513002831 ATP binding site [chemical binding]; other site 640513002832 Q-loop/lid; other site 640513002833 ABC transporter signature motif; other site 640513002834 Walker B; other site 640513002835 D-loop; other site 640513002836 H-loop/switch region; other site 640513002837 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 640513002838 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 640513002839 siderophore binding site; other site 640513002840 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 640513002841 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 640513002842 ABC-ATPase subunit interface; other site 640513002843 dimer interface [polypeptide binding]; other site 640513002844 putative PBP binding regions; other site 640513002845 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 640513002846 ABC-ATPase subunit interface; other site 640513002847 dimer interface [polypeptide binding]; other site 640513002848 putative PBP binding regions; other site 640513002849 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 640513002850 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 640513002851 inhibitor-cofactor binding pocket; inhibition site 640513002852 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513002853 catalytic residue [active] 640513002854 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 640513002855 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 640513002856 Cl- selectivity filter; other site 640513002857 Cl- binding residues [ion binding]; other site 640513002858 pore gating glutamate residue; other site 640513002859 dimer interface [polypeptide binding]; other site 640513002860 H+/Cl- coupling transport residue; other site 640513002861 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 640513002862 hypothetical protein; Provisional; Region: PRK10578 640513002863 UPF0126 domain; Region: UPF0126; pfam03458 640513002864 UPF0126 domain; Region: UPF0126; pfam03458 640513002865 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 640513002866 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 640513002867 cobalamin binding residues [chemical binding]; other site 640513002868 putative BtuC binding residues; other site 640513002869 dimer interface [polypeptide binding]; other site 640513002870 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 640513002871 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 640513002872 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 640513002873 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 640513002874 Zn2+ binding site [ion binding]; other site 640513002875 Mg2+ binding site [ion binding]; other site 640513002876 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 640513002877 serine endoprotease; Provisional; Region: PRK10942 640513002878 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 640513002879 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 640513002880 protein binding site [polypeptide binding]; other site 640513002881 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 640513002882 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 640513002883 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 640513002884 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 640513002885 hypothetical protein; Provisional; Region: PRK13677 640513002886 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 640513002887 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 640513002888 trimer interface [polypeptide binding]; other site 640513002889 active site 640513002890 substrate binding site [chemical binding]; other site 640513002891 CoA binding site [chemical binding]; other site 640513002892 PII uridylyl-transferase; Provisional; Region: PRK05007 640513002893 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 640513002894 metal binding triad; other site 640513002895 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 640513002896 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 640513002897 Zn2+ binding site [ion binding]; other site 640513002898 Mg2+ binding site [ion binding]; other site 640513002899 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 640513002900 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 640513002901 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 640513002902 active site 640513002903 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 640513002904 rRNA interaction site [nucleotide binding]; other site 640513002905 S8 interaction site; other site 640513002906 putative laminin-1 binding site; other site 640513002907 elongation factor Ts; Provisional; Region: tsf; PRK09377 640513002908 UBA/TS-N domain; Region: UBA; pfam00627 640513002909 Elongation factor TS; Region: EF_TS; pfam00889 640513002910 Elongation factor TS; Region: EF_TS; pfam00889 640513002911 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 640513002912 putative nucleotide binding site [chemical binding]; other site 640513002913 uridine monophosphate binding site [chemical binding]; other site 640513002914 homohexameric interface [polypeptide binding]; other site 640513002915 ribosome recycling factor; Reviewed; Region: frr; PRK00083 640513002916 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 640513002917 hinge region; other site 640513002918 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 640513002919 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 640513002920 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 640513002921 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 640513002922 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 640513002923 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 640513002924 catalytic residue [active] 640513002925 putative FPP diphosphate binding site; other site 640513002926 putative FPP binding hydrophobic cleft; other site 640513002927 dimer interface [polypeptide binding]; other site 640513002928 putative IPP diphosphate binding site; other site 640513002929 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 640513002930 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 640513002931 zinc metallopeptidase RseP; Provisional; Region: PRK10779 640513002932 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 640513002933 active site 640513002934 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 640513002935 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 640513002936 protein binding site [polypeptide binding]; other site 640513002937 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 640513002938 putative substrate binding region [chemical binding]; other site 640513002939 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 640513002940 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640513002941 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640513002942 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640513002943 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640513002944 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 640513002945 Surface antigen; Region: Bac_surface_Ag; pfam01103 640513002946 periplasmic chaperone; Provisional; Region: PRK10780 640513002947 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 640513002948 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 640513002949 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 640513002950 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 640513002951 trimer interface [polypeptide binding]; other site 640513002952 active site 640513002953 UDP-GlcNAc binding site [chemical binding]; other site 640513002954 lipid binding site [chemical binding]; lipid-binding site 640513002955 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 640513002956 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 640513002957 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 640513002958 active site 640513002959 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 640513002960 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 640513002961 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 640513002962 RNA/DNA hybrid binding site [nucleotide binding]; other site 640513002963 active site 640513002964 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 640513002965 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 640513002966 putative active site [active] 640513002967 putative PHP Thumb interface [polypeptide binding]; other site 640513002968 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 640513002969 generic binding surface II; other site 640513002970 generic binding surface I; other site 640513002971 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 640513002972 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 640513002973 lysine decarboxylase LdcC; Provisional; Region: PRK15399 640513002974 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 640513002975 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 640513002976 homodimer interface [polypeptide binding]; other site 640513002977 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513002978 catalytic residue [active] 640513002979 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 640513002980 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 640513002981 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640513002982 putative metal binding site [ion binding]; other site 640513002983 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 640513002984 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 640513002985 Ligand Binding Site [chemical binding]; other site 640513002986 TilS substrate binding domain; Region: TilS; pfam09179 640513002987 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 640513002988 Rho-binding antiterminator; Provisional; Region: PRK11625 640513002989 hypothetical protein; Provisional; Region: PRK04964 640513002990 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4681 640513002991 hypothetical protein; Provisional; Region: PRK09256 640513002992 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 640513002993 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 640513002994 NlpE N-terminal domain; Region: NlpE; pfam04170 640513002995 prolyl-tRNA synthetase; Provisional; Region: PRK09194 640513002996 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 640513002997 dimer interface [polypeptide binding]; other site 640513002998 motif 1; other site 640513002999 active site 640513003000 motif 2; other site 640513003001 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 640513003002 putative deacylase active site [active] 640513003003 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 640513003004 active site 640513003005 motif 3; other site 640513003006 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 640513003007 anticodon binding site; other site 640513003008 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 640513003009 homodimer interaction site [polypeptide binding]; other site 640513003010 cofactor binding site; other site 640513003011 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 640513003012 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 640513003013 lipoprotein, YaeC family; Region: TIGR00363 640513003014 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 640513003015 dimer interface [polypeptide binding]; other site 640513003016 conserved gate region; other site 640513003017 ABC-ATPase subunit interface; other site 640513003018 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 640513003019 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 640513003020 Walker A/P-loop; other site 640513003021 ATP binding site [chemical binding]; other site 640513003022 Q-loop/lid; other site 640513003023 ABC transporter signature motif; other site 640513003024 Walker B; other site 640513003025 D-loop; other site 640513003026 H-loop/switch region; other site 640513003027 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 640513003028 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 640513003029 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 640513003030 active site 640513003031 motif I; other site 640513003032 motif II; other site 640513003033 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 640513003034 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640513003035 active site 640513003036 catalytic tetrad [active] 640513003037 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513003038 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513003039 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 640513003040 putative effector binding pocket; other site 640513003041 dimerization interface [polypeptide binding]; other site 640513003042 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640513003043 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 640513003044 putative substrate translocation pore; other site 640513003045 hypothetical protein; Provisional; Region: PRK05421 640513003046 putative catalytic site [active] 640513003047 putative metal binding site [ion binding]; other site 640513003048 putative phosphate binding site [ion binding]; other site 640513003049 putative catalytic site [active] 640513003050 putative phosphate binding site [ion binding]; other site 640513003051 putative metal binding site [ion binding]; other site 640513003052 Methyltransferase domain; Region: Methyltransf_31; pfam13847 640513003053 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 640513003054 S-adenosylmethionine binding site [chemical binding]; other site 640513003055 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 640513003056 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 640513003057 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640513003058 catalytic residue [active] 640513003059 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640513003060 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640513003061 hydroxyacylglutathione hydrolase; Provisional; Region: PRK10241 640513003062 Methyltransferase domain; Region: Methyltransf_23; pfam13489 640513003063 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 640513003064 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 640513003065 RNA/DNA hybrid binding site [nucleotide binding]; other site 640513003066 active site 640513003067 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 640513003068 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 640513003069 active site 640513003070 catalytic site [active] 640513003071 substrate binding site [chemical binding]; other site 640513003072 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640513003073 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640513003074 DNA-binding site [nucleotide binding]; DNA binding site 640513003075 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640513003076 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 640513003077 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640513003078 Walker A/P-loop; other site 640513003079 ATP binding site [chemical binding]; other site 640513003080 Q-loop/lid; other site 640513003081 ABC transporter signature motif; other site 640513003082 Walker B; other site 640513003083 D-loop; other site 640513003084 H-loop/switch region; other site 640513003085 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 640513003086 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 640513003087 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640513003088 Walker A/P-loop; other site 640513003089 ATP binding site [chemical binding]; other site 640513003090 Q-loop/lid; other site 640513003091 ABC transporter signature motif; other site 640513003092 Walker B; other site 640513003093 D-loop; other site 640513003094 H-loop/switch region; other site 640513003095 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 640513003096 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640513003097 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 640513003098 dimer interface [polypeptide binding]; other site 640513003099 conserved gate region; other site 640513003100 putative PBP binding loops; other site 640513003101 ABC-ATPase subunit interface; other site 640513003102 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 640513003103 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 640513003104 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 640513003105 dimer interface [polypeptide binding]; other site 640513003106 conserved gate region; other site 640513003107 ABC-ATPase subunit interface; other site 640513003108 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 640513003109 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 640513003110 C-N hydrolase family amidase; Provisional; Region: PRK10438 640513003111 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 640513003112 putative active site [active] 640513003113 catalytic triad [active] 640513003114 dimer interface [polypeptide binding]; other site 640513003115 multimer interface [polypeptide binding]; other site 640513003116 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 640513003117 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640513003118 active site 640513003119 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 640513003120 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 640513003121 dimer interface [polypeptide binding]; other site 640513003122 active site 640513003123 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 640513003124 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 640513003125 putative active site [active] 640513003126 putative dimer interface [polypeptide binding]; other site 640513003127 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 640513003128 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 640513003129 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 640513003130 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 640513003131 E3 interaction surface; other site 640513003132 lipoyl attachment site [posttranslational modification]; other site 640513003133 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 640513003134 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 640513003135 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 640513003136 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 640513003137 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 640513003138 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 640513003139 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 640513003140 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 640513003141 FAD binding pocket [chemical binding]; other site 640513003142 FAD binding motif [chemical binding]; other site 640513003143 phosphate binding motif [ion binding]; other site 640513003144 beta-alpha-beta structure motif; other site 640513003145 NAD binding pocket [chemical binding]; other site 640513003146 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 640513003147 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 640513003148 active site 640513003149 DNA polymerase IV; Validated; Region: PRK02406 640513003150 DNA binding site [nucleotide binding] 640513003151 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 640513003152 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 640513003153 metal binding site [ion binding]; metal-binding site 640513003154 dimer interface [polypeptide binding]; other site 640513003155 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640513003156 active site 640513003157 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 640513003158 DNA-binding transcriptional regulator Crl; Provisional; Region: PRK10984 640513003159 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640513003160 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 640513003161 trimer interface [polypeptide binding]; other site 640513003162 eyelet of channel; other site 640513003163 gamma-glutamyl kinase; Provisional; Region: PRK05429 640513003164 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 640513003165 nucleotide binding site [chemical binding]; other site 640513003166 homotetrameric interface [polypeptide binding]; other site 640513003167 putative phosphate binding site [ion binding]; other site 640513003168 putative allosteric binding site; other site 640513003169 PUA domain; Region: PUA; pfam01472 640513003170 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 640513003171 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 640513003172 putative catalytic cysteine [active] 640513003173 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 640513003174 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 640513003175 UDP-glucose 4-epimerase; Region: PLN02240 640513003176 NAD binding site [chemical binding]; other site 640513003177 homodimer interface [polypeptide binding]; other site 640513003178 active site 640513003179 substrate binding site [chemical binding]; other site 640513003180 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640513003181 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 640513003182 Predicted transcriptional regulator [Transcription]; Region: COG2378 640513003183 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 640513003184 WYL domain; Region: WYL; pfam13280 640513003185 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 640513003186 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 640513003187 GAF domain; Region: GAF_3; pfam13492 640513003188 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640513003189 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640513003190 metal binding site [ion binding]; metal-binding site 640513003191 active site 640513003192 I-site; other site 640513003193 Domain of unknown function DUF20; Region: UPF0118; pfam01594 640513003194 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640513003195 Arginase-like amidino hydrolase family; Region: Arginase-like_1; cd09999 640513003196 active site 640513003197 Mn binding site [ion binding]; other site 640513003198 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513003199 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513003200 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 640513003201 putative effector binding pocket; other site 640513003202 putative dimerization interface [polypeptide binding]; other site 640513003203 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 640513003204 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 640513003205 putative substrate translocation pore; other site 640513003206 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 640513003207 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 640513003208 metal binding site [ion binding]; metal-binding site 640513003209 dimer interface [polypeptide binding]; other site 640513003210 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 640513003211 D-galactonate transporter; Region: 2A0114; TIGR00893 640513003212 putative substrate translocation pore; other site 640513003213 DNA-binding transcriptional activator TdcA; Provisional; Region: PRK10341 640513003214 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513003215 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 640513003216 dimerization interface [polypeptide binding]; other site 640513003217 S-methylmethionine transporter; Provisional; Region: PRK11387 640513003218 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 640513003219 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 640513003220 Fimbrial protein; Region: Fimbrial; cl01416 640513003221 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 640513003222 putative fimbrial outer membrane usher protein StfC; Provisional; Region: PRK15284 640513003223 PapC N-terminal domain; Region: PapC_N; pfam13954 640513003224 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 640513003225 PapC C-terminal domain; Region: PapC_C; pfam13953 640513003226 putative fimbrial chaperone protein StfD; Provisional; Region: PRK15285 640513003227 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 640513003228 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 640513003229 Fimbrial protein; Region: Fimbrial; cl01416 640513003230 Fimbrial protein; Region: Fimbrial; pfam00419 640513003231 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; cd01948 640513003232 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; cl17355 640513003233 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 640513003234 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 640513003235 substrate binding pocket [chemical binding]; other site 640513003236 membrane-bound complex binding site; other site 640513003237 hinge residues; other site 640513003238 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 640513003239 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 640513003240 Walker A/P-loop; other site 640513003241 ATP binding site [chemical binding]; other site 640513003242 Q-loop/lid; other site 640513003243 ABC transporter signature motif; other site 640513003244 Walker B; other site 640513003245 D-loop; other site 640513003246 H-loop/switch region; other site 640513003247 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640513003248 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 640513003249 dimer interface [polypeptide binding]; other site 640513003250 conserved gate region; other site 640513003251 putative PBP binding loops; other site 640513003252 ABC-ATPase subunit interface; other site 640513003253 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 640513003254 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 640513003255 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 640513003256 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 640513003257 putative acyl-acceptor binding pocket; other site 640513003258 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 640513003259 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 640513003260 dimer interface [polypeptide binding]; other site 640513003261 active site 640513003262 Schiff base residues; other site 640513003263 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cd00253 640513003264 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 640513003265 Autotransporter beta-domain; Region: Autotransporter; pfam03797 640513003266 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 640513003267 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; cl00047 640513003268 beta-lactam binding protein AmpH; Provisional; Region: PRK10662 640513003269 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 640513003270 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; cl00220 640513003271 Isochorismatase family; Region: Isochorismatase; pfam00857 640513003272 catalytic triad [active] 640513003273 conserved cis-peptide bond; other site 640513003274 microcin B17 transporter; Reviewed; Region: PRK11098 640513003275 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 640513003276 Protein of unknown function (DUF2755); Region: DUF2755; pfam10954 640513003277 Protein of unknown function (DUF2754); Region: DUF2754; pfam10953 640513003278 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 640513003279 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 640513003280 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 640513003281 drug efflux system protein MdtG; Provisional; Region: PRK09874 640513003282 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 640513003283 putative substrate translocation pore; other site 640513003284 anti-RssB factor; Provisional; Region: PRK10244 640513003285 alkaline phosphatase; Provisional; Region: PRK10518 640513003286 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 640513003287 dimer interface [polypeptide binding]; other site 640513003288 active site 640513003289 hypothetical protein; Provisional; Region: PRK11505 640513003290 psiF repeat; Region: PsiF_repeat; pfam07769 640513003291 psiF repeat; Region: PsiF_repeat; pfam07769 640513003292 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 640513003293 MASE2 domain; Region: MASE2; pfam05230 640513003294 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640513003295 metal binding site [ion binding]; metal-binding site 640513003296 active site 640513003297 I-site; other site 640513003298 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 640513003299 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 640513003300 hypothetical protein; Validated; Region: PRK00124 640513003301 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 640513003302 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 640513003303 ADP binding site [chemical binding]; other site 640513003304 magnesium binding site [ion binding]; other site 640513003305 putative shikimate binding site; other site 640513003306 hypothetical protein; Provisional; Region: PRK10380 640513003307 hypothetical protein; Provisional; Region: PRK10481 640513003308 hypothetical protein; Provisional; Region: PRK10579 640513003309 recombination associated protein; Reviewed; Region: rdgC; PRK00321 640513003310 fructokinase; Reviewed; Region: PRK09557 640513003311 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 640513003312 nucleotide binding site [chemical binding]; other site 640513003313 exonuclease subunit SbcC; Provisional; Region: PRK10246 640513003314 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513003315 Walker A/P-loop; other site 640513003316 ATP binding site [chemical binding]; other site 640513003317 Q-loop/lid; other site 640513003318 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513003319 ABC transporter signature motif; other site 640513003320 Walker B; other site 640513003321 D-loop; other site 640513003322 H-loop/switch region; other site 640513003323 exonuclease subunit SbcD; Provisional; Region: PRK10966 640513003324 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 640513003325 active site 640513003326 metal binding site [ion binding]; metal-binding site 640513003327 DNA binding site [nucleotide binding] 640513003328 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 640513003329 transcriptional regulator PhoB; Provisional; Region: PRK10161 640513003330 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 640513003331 active site 640513003332 phosphorylation site [posttranslational modification] 640513003333 intermolecular recognition site; other site 640513003334 dimerization interface [polypeptide binding]; other site 640513003335 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 640513003336 DNA binding site [nucleotide binding] 640513003337 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 640513003338 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 640513003339 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 640513003340 putative active site [active] 640513003341 heme pocket [chemical binding]; other site 640513003342 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 640513003343 dimer interface [polypeptide binding]; other site 640513003344 phosphorylation site [posttranslational modification] 640513003345 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 640513003346 ATP binding site [chemical binding]; other site 640513003347 Mg2+ binding site [ion binding]; other site 640513003348 G-X-G motif; other site 640513003349 branched-chain amino acid transport system 2 carrier protein BrnQ; Provisional; Region: PRK15433 640513003350 putative proline-specific permease; Provisional; Region: proY; PRK10580 640513003351 maltodextrin glucosidase; Provisional; Region: PRK10785 640513003352 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 640513003353 homodimer interface [polypeptide binding]; other site 640513003354 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 640513003355 active site 640513003356 homodimer interface [polypeptide binding]; other site 640513003357 catalytic site [active] 640513003358 Isochorismatase family; Region: Isochorismatase; pfam00857 640513003359 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 640513003360 catalytic triad [active] 640513003361 dimer interface [polypeptide binding]; other site 640513003362 conserved cis-peptide bond; other site 640513003363 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 640513003364 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 640513003365 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 640513003366 active site 640513003367 peroxidase; Provisional; Region: PRK15000 640513003368 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 640513003369 dimer interface [polypeptide binding]; other site 640513003370 decamer (pentamer of dimers) interface [polypeptide binding]; other site 640513003371 catalytic triad [active] 640513003372 peroxidatic and resolving cysteines [active] 640513003373 acyl carrier protein phosphodiesterase; Provisional; Region: PRK10045 640513003374 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 640513003375 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 640513003376 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 640513003377 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 640513003378 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 640513003379 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 640513003380 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 640513003381 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 640513003382 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 640513003383 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 640513003384 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 640513003385 Protein export membrane protein; Region: SecD_SecF; pfam02355 640513003386 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 640513003387 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640513003388 Predicted transcriptional regulator [Transcription]; Region: COG2378 640513003389 HTH domain; Region: HTH_11; pfam08279 640513003390 WYL domain; Region: WYL; pfam13280 640513003391 nucleoside-specific channel-forming protein Tsx; Provisional; Region: PRK15106 640513003392 hypothetical protein; Provisional; Region: PRK11530 640513003393 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 640513003394 ATP cone domain; Region: ATP-cone; pfam03477 640513003395 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 640513003396 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 640513003397 catalytic motif [active] 640513003398 Zn binding site [ion binding]; other site 640513003399 riboflavin-specific deaminase C-terminal domain; Region: ribD_Cterm; TIGR00227 640513003400 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 640513003401 homopentamer interface [polypeptide binding]; other site 640513003402 active site 640513003403 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 640513003404 putative RNA binding site [nucleotide binding]; other site 640513003405 thiamine monophosphate kinase; Provisional; Region: PRK05731 640513003406 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 640513003407 ATP binding site [chemical binding]; other site 640513003408 dimerization interface [polypeptide binding]; other site 640513003409 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 640513003410 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640513003411 active site 640513003412 catalytic tetrad [active] 640513003413 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 640513003414 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 640513003415 TPP-binding site; other site 640513003416 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 640513003417 PYR/PP interface [polypeptide binding]; other site 640513003418 dimer interface [polypeptide binding]; other site 640513003419 TPP binding site [chemical binding]; other site 640513003420 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640513003421 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 640513003422 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 640513003423 substrate binding pocket [chemical binding]; other site 640513003424 chain length determination region; other site 640513003425 substrate-Mg2+ binding site; other site 640513003426 catalytic residues [active] 640513003427 aspartate-rich region 1; other site 640513003428 active site lid residues [active] 640513003429 aspartate-rich region 2; other site 640513003430 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 640513003431 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 640513003432 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 640513003433 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 640513003434 Ligand Binding Site [chemical binding]; other site 640513003435 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 640513003436 active site residue [active] 640513003437 oxidative-stress-resistance chaperone; Provisional; Region: PRK11574 640513003438 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 640513003439 conserved cys residue [active] 640513003440 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 640513003441 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 640513003442 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 640513003443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 640513003444 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 640513003445 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 640513003446 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640513003447 putative substrate translocation pore; other site 640513003448 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 640513003449 UbiA prenyltransferase family; Region: UbiA; pfam01040 640513003450 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 640513003451 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 640513003452 Subunit I/III interface [polypeptide binding]; other site 640513003453 Subunit III/IV interface [polypeptide binding]; other site 640513003454 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 640513003455 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 640513003456 D-pathway; other site 640513003457 Putative ubiquinol binding site [chemical binding]; other site 640513003458 Low-spin heme (heme b) binding site [chemical binding]; other site 640513003459 Putative water exit pathway; other site 640513003460 Binuclear center (heme o3/CuB) [ion binding]; other site 640513003461 K-pathway; other site 640513003462 Putative proton exit pathway; other site 640513003463 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 640513003464 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 640513003465 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 640513003466 muropeptide transporter; Reviewed; Region: ampG; PRK11902 640513003467 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 640513003468 putative substrate translocation pore; other site 640513003469 hypothetical protein; Provisional; Region: PRK11627 640513003470 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 640513003471 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 640513003472 transcriptional regulator BolA; Provisional; Region: PRK11628 640513003473 trigger factor; Provisional; Region: tig; PRK01490 640513003474 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 640513003475 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 640513003476 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 640513003477 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 640513003478 oligomer interface [polypeptide binding]; other site 640513003479 active site residues [active] 640513003480 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 640513003481 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 640513003482 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 640513003483 Walker A motif; other site 640513003484 ATP binding site [chemical binding]; other site 640513003485 Walker B motif; other site 640513003486 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 640513003487 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 640513003488 Found in ATP-dependent protease La (LON); Region: LON; smart00464 640513003489 Found in ATP-dependent protease La (LON); Region: LON; smart00464 640513003490 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 640513003491 Walker A motif; other site 640513003492 ATP binding site [chemical binding]; other site 640513003493 Walker B motif; other site 640513003494 arginine finger; other site 640513003495 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 640513003496 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 640513003497 IHF dimer interface [polypeptide binding]; other site 640513003498 IHF - DNA interface [nucleotide binding]; other site 640513003499 periplasmic folding chaperone; Provisional; Region: PRK10788 640513003500 SurA N-terminal domain; Region: SurA_N_3; cl07813 640513003501 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 640513003502 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 640513003503 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 640513003504 active site 640513003505 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 640513003506 Ligand Binding Site [chemical binding]; other site 640513003507 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 640513003508 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 640513003509 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 640513003510 thiamin pyrimidine pyrophosphate hydrolase; Provisional; Region: PRK15126 640513003511 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 640513003512 active site 640513003513 motif I; other site 640513003514 motif II; other site 640513003515 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 640513003516 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 640513003517 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640513003518 catalytic residue [active] 640513003519 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640513003520 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 640513003521 putative DNA binding site [nucleotide binding]; other site 640513003522 putative Zn2+ binding site [ion binding]; other site 640513003523 AsnC family; Region: AsnC_trans_reg; pfam01037 640513003524 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 640513003525 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640513003526 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513003527 Walker A/P-loop; other site 640513003528 ATP binding site [chemical binding]; other site 640513003529 Q-loop/lid; other site 640513003530 ABC transporter signature motif; other site 640513003531 Walker B; other site 640513003532 D-loop; other site 640513003533 H-loop/switch region; other site 640513003534 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 640513003535 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640513003536 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 640513003537 Walker A/P-loop; other site 640513003538 ATP binding site [chemical binding]; other site 640513003539 Q-loop/lid; other site 640513003540 ABC transporter signature motif; other site 640513003541 Walker B; other site 640513003542 D-loop; other site 640513003543 H-loop/switch region; other site 640513003544 nitrogen regulatory protein P-II 2; Provisional; Region: PRK10665 640513003545 Nitrogen regulatory protein P-II; Region: P-II; smart00938 640513003546 ammonium transporter; Provisional; Region: PRK10666 640513003547 acyl-CoA thioesterase II; Provisional; Region: PRK10526 640513003548 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 640513003549 active site 640513003550 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 640513003551 catalytic triad [active] 640513003552 dimer interface [polypeptide binding]; other site 640513003553 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 640513003554 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 640513003555 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 640513003556 DNA binding site [nucleotide binding] 640513003557 active site 640513003558 putative lipid kinase; Reviewed; Region: PRK13057 640513003559 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 640513003560 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640513003561 DNA-binding site [nucleotide binding]; DNA binding site 640513003562 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 640513003563 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513003564 homodimer interface [polypeptide binding]; other site 640513003565 catalytic residue [active] 640513003566 Predicted membrane protein [Function unknown]; Region: COG2364 640513003567 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 640513003568 lac repressor; Reviewed; Region: lacI; PRK09526 640513003569 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640513003570 DNA binding site [nucleotide binding] 640513003571 domain linker motif; other site 640513003572 Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_LacI; cd01574 640513003573 ligand binding site [chemical binding]; other site 640513003574 dimerization interface (open form) [polypeptide binding]; other site 640513003575 dimerization interface (closed form) [polypeptide binding]; other site 640513003576 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 640513003577 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 640513003578 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 640513003579 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 640513003580 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 640513003581 nickel/cobalt efflux protein RcnA; Provisional; Region: PRK10019 640513003582 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 640513003583 putative metal binding site [ion binding]; other site 640513003584 putative homodimer interface [polypeptide binding]; other site 640513003585 putative homotetramer interface [polypeptide binding]; other site 640513003586 putative homodimer-homodimer interface [polypeptide binding]; other site 640513003587 putative allosteric switch controlling residues; other site 640513003588 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 640513003589 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 640513003590 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; cd01948 640513003591 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 640513003592 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 640513003593 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 640513003594 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 640513003595 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 640513003596 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640513003597 DNA-binding site [nucleotide binding]; DNA binding site 640513003598 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 640513003599 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513003600 homodimer interface [polypeptide binding]; other site 640513003601 catalytic residue [active] 640513003602 sigma70 family sigma factor YlaC; Region: YlaC; pfam10777 640513003603 maltose O-acetyltransferase; Provisional; Region: PRK10092 640513003604 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 640513003605 active site 640513003606 substrate binding site [chemical binding]; other site 640513003607 trimer interface [polypeptide binding]; other site 640513003608 CoA binding site [chemical binding]; other site 640513003609 gene expression modulator; Provisional; Region: PRK10945 640513003610 Hha toxicity attenuator; Provisional; Region: PRK10667 640513003611 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 640513003612 Protein export membrane protein; Region: SecD_SecF; cl14618 640513003613 Protein export membrane protein; Region: SecD_SecF; cl14618 640513003614 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 640513003615 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640513003616 HlyD family secretion protein; Region: HlyD_3; pfam13437 640513003617 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 640513003618 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640513003619 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 640513003620 hypothetical protein; Provisional; Region: PRK11281 640513003621 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 640513003622 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640513003623 Protein of unknown function (DUF2496); Region: DUF2496; pfam10689 640513003624 primosomal replication protein N''; Provisional; Region: PRK10093 640513003625 hypothetical protein; Provisional; Region: PRK10527 640513003626 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640513003627 active site 640513003628 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 640513003629 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 640513003630 Walker A motif; other site 640513003631 ATP binding site [chemical binding]; other site 640513003632 Walker B motif; other site 640513003633 DNA polymerase III subunit delta'; Validated; Region: PRK08485 640513003634 arginine finger; other site 640513003635 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 640513003636 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 640513003637 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 640513003638 hypothetical protein; Validated; Region: PRK00153 640513003639 recombination protein RecR; Reviewed; Region: recR; PRK00076 640513003640 RecR protein; Region: RecR; pfam02132 640513003641 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 640513003642 putative active site [active] 640513003643 putative metal-binding site [ion binding]; other site 640513003644 tetramer interface [polypeptide binding]; other site 640513003645 heat shock protein 90; Provisional; Region: PRK05218 640513003646 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 640513003647 ATP binding site [chemical binding]; other site 640513003648 Mg2+ binding site [ion binding]; other site 640513003649 G-X-G motif; other site 640513003650 adenylate kinase; Reviewed; Region: adk; PRK00279 640513003651 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 640513003652 AMP-binding site [chemical binding]; other site 640513003653 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 640513003654 ferrochelatase; Reviewed; Region: hemH; PRK00035 640513003655 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 640513003656 C-terminal domain interface [polypeptide binding]; other site 640513003657 active site 640513003658 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 640513003659 active site 640513003660 N-terminal domain interface [polypeptide binding]; other site 640513003661 inosine/guanosine kinase; Provisional; Region: PRK15074 640513003662 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640513003663 putative cation:proton antiport protein; Provisional; Region: PRK10669 640513003664 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 640513003665 TrkA-N domain; Region: TrkA_N; pfam02254 640513003666 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 640513003667 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640513003668 putative substrate translocation pore; other site 640513003669 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 640513003670 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 640513003671 active site 640513003672 metal binding site [ion binding]; metal-binding site 640513003673 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 640513003674 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 640513003675 putative deacylase active site [active] 640513003676 TraB family; Region: TraB; cl12050 640513003677 copper exporting ATPase; Provisional; Region: copA; PRK10671 640513003678 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 640513003679 metal-binding site [ion binding] 640513003680 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 640513003681 metal-binding site [ion binding] 640513003682 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640513003683 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 640513003684 motif II; other site 640513003685 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 640513003686 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 640513003687 DNA binding residues [nucleotide binding] 640513003688 dimer interface [polypeptide binding]; other site 640513003689 copper binding site [ion binding]; other site 640513003690 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 640513003691 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 640513003692 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 640513003693 large tegument protein UL36; Provisional; Region: PHA03247 640513003694 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 640513003695 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513003696 Walker A/P-loop; other site 640513003697 ATP binding site [chemical binding]; other site 640513003698 Q-loop/lid; other site 640513003699 ABC transporter signature motif; other site 640513003700 Walker B; other site 640513003701 D-loop; other site 640513003702 H-loop/switch region; other site 640513003703 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 640513003704 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 640513003705 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 640513003706 oxidoreductase; Provisional; Region: PRK08017 640513003707 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 640513003708 NADP binding site [chemical binding]; other site 640513003709 active site 640513003710 steroid binding site; other site 640513003711 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 640513003712 active site 640513003713 catalytic triad [active] 640513003714 oxyanion hole [active] 640513003715 switch loop; other site 640513003716 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 640513003717 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 640513003718 Walker A/P-loop; other site 640513003719 ATP binding site [chemical binding]; other site 640513003720 Q-loop/lid; other site 640513003721 ABC transporter signature motif; other site 640513003722 Walker B; other site 640513003723 D-loop; other site 640513003724 H-loop/switch region; other site 640513003725 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 640513003726 FtsX-like permease family; Region: FtsX; pfam02687 640513003727 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640513003728 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 640513003729 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 640513003730 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 640513003731 active site residue [active] 640513003732 AAA domain; Region: AAA_17; pfam13207 640513003733 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 640513003734 ATP-grasp domain; Region: ATP-grasp; pfam02222 640513003735 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 640513003736 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 640513003737 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 640513003738 putative active site [active] 640513003739 putative metal binding site [ion binding]; other site 640513003740 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 640513003741 substrate binding site [chemical binding]; other site 640513003742 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 640513003743 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 640513003744 active site 640513003745 HIGH motif; other site 640513003746 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 640513003747 KMSKS motif; other site 640513003748 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 640513003749 tRNA binding surface [nucleotide binding]; other site 640513003750 anticodon binding site; other site 640513003751 DNA-binding transcriptional repressor MalI; Provisional; Region: PRK10014 640513003752 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640513003753 DNA binding site [nucleotide binding] 640513003754 domain linker motif; other site 640513003755 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640513003756 ribosome-associated protein; Provisional; Region: PRK11507 640513003757 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 640513003758 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 640513003759 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 640513003760 homodimer interface [polypeptide binding]; other site 640513003761 NADP binding site [chemical binding]; other site 640513003762 substrate binding site [chemical binding]; other site 640513003763 type-1 fimbrial protein subunit A; Provisional; Region: PRK15194 640513003764 fimbrial protein FimI; Provisional; Region: PRK15200 640513003765 fimbrial chaperone protein FimC; Provisional; Region: PRK15195 640513003766 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 640513003767 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 640513003768 outer membrane usher protein FimD; Provisional; Region: PRK15198 640513003769 PapC N-terminal domain; Region: PapC_N; pfam13954 640513003770 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 640513003771 PapC C-terminal domain; Region: PapC_C; pfam13953 640513003772 Fimbrial protein; Region: Fimbrial; cl01416 640513003773 fimbrial-like adhesin protein SfmF; Provisional; Region: PRK09934 640513003774 transcriptional regulator FimZ; Provisional; Region: PRK09935 640513003775 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 640513003776 active site 640513003777 phosphorylation site [posttranslational modification] 640513003778 intermolecular recognition site; other site 640513003779 dimerization interface [polypeptide binding]; other site 640513003780 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 640513003781 DNA binding residues [nucleotide binding] 640513003782 dimerization interface [polypeptide binding]; other site 640513003783 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640513003784 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 640513003785 DNA binding residues [nucleotide binding] 640513003786 dimerization interface [polypeptide binding]; other site 640513003787 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 640513003788 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 640513003789 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640513003790 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 640513003791 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 640513003792 dimer interface [polypeptide binding]; other site 640513003793 conserved gate region; other site 640513003794 ABC-ATPase subunit interface; other site 640513003795 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 640513003796 dimer interface [polypeptide binding]; other site 640513003797 conserved gate region; other site 640513003798 putative PBP binding loops; other site 640513003799 ABC-ATPase subunit interface; other site 640513003800 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640513003801 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 640513003802 Walker A/P-loop; other site 640513003803 ATP binding site [chemical binding]; other site 640513003804 Q-loop/lid; other site 640513003805 ABC transporter signature motif; other site 640513003806 Walker B; other site 640513003807 D-loop; other site 640513003808 H-loop/switch region; other site 640513003809 hypothetical protein; Provisional; Region: PRK09929 640513003810 PQQ-like domain; Region: PQQ_2; pfam13360 640513003811 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 640513003812 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 640513003813 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 640513003814 N-terminal plug; other site 640513003815 ligand-binding site [chemical binding]; other site 640513003816 phenylalanine transporter; Provisional; Region: PRK10249 640513003817 phenyl proprionate permease family protein; Region: 2A0127; TIGR00902 640513003818 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 640513003819 putative substrate translocation pore; other site 640513003820 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 640513003821 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 640513003822 Metal-binding active site; metal-binding site 640513003823 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 640513003824 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640513003825 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 640513003826 NAD(P) binding site [chemical binding]; other site 640513003827 shikimate binding site; other site 640513003828 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 640513003829 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640513003830 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640513003831 DNA binding site [nucleotide binding] 640513003832 domain linker motif; other site 640513003833 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 640513003834 dimerization interface [polypeptide binding]; other site 640513003835 ligand binding site [chemical binding]; other site 640513003836 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 640513003837 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640513003838 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 640513003839 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640513003840 putative substrate translocation pore; other site 640513003841 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 640513003842 Helix-turn-helix domain; Region: HTH_31; pfam13560 640513003843 sequence-specific DNA binding site [nucleotide binding]; other site 640513003844 salt bridge; other site 640513003845 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 640513003846 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 640513003847 non-specific DNA binding site [nucleotide binding]; other site 640513003848 salt bridge; other site 640513003849 sequence-specific DNA binding site [nucleotide binding]; other site 640513003850 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 640513003851 dimer interface [polypeptide binding]; other site 640513003852 FMN binding site [chemical binding]; other site 640513003853 hypothetical protein; Provisional; Region: PRK10250 640513003854 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640513003855 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640513003856 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 640513003857 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 640513003858 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 640513003859 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513003860 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 640513003861 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 640513003862 N-terminal plug; other site 640513003863 ligand-binding site [chemical binding]; other site 640513003864 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 640513003865 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 640513003866 Protein of unknown function (DUF1158); Region: DUF1158; pfam06643 640513003867 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 640513003868 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 640513003869 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640513003870 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 640513003871 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 640513003872 motif II; other site 640513003873 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 640513003874 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640513003875 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640513003876 HlyD family secretion protein; Region: HlyD_3; pfam13437 640513003877 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640513003878 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 640513003879 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 640513003880 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 640513003881 DNA-binding site [nucleotide binding]; DNA binding site 640513003882 RNA-binding motif; other site 640513003883 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 640513003884 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640513003885 Walker A/P-loop; other site 640513003886 ATP binding site [chemical binding]; other site 640513003887 Q-loop/lid; other site 640513003888 ABC transporter signature motif; other site 640513003889 Walker B; other site 640513003890 D-loop; other site 640513003891 H-loop/switch region; other site 640513003892 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 640513003893 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640513003894 Walker A/P-loop; other site 640513003895 ATP binding site [chemical binding]; other site 640513003896 Q-loop/lid; other site 640513003897 ABC transporter signature motif; other site 640513003898 Walker B; other site 640513003899 D-loop; other site 640513003900 H-loop/switch region; other site 640513003901 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 640513003902 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 640513003903 dimer interface [polypeptide binding]; other site 640513003904 conserved gate region; other site 640513003905 ABC-ATPase subunit interface; other site 640513003906 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640513003907 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 640513003908 dimer interface [polypeptide binding]; other site 640513003909 conserved gate region; other site 640513003910 putative PBP binding loops; other site 640513003911 ABC-ATPase subunit interface; other site 640513003912 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 640513003913 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640513003914 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 640513003915 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 640513003916 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 640513003917 bacterial glycerol kinase 2-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GK2_bacteria; cd07791 640513003918 N- and C-terminal domain interface [polypeptide binding]; other site 640513003919 active site 640513003920 MgATP binding site [chemical binding]; other site 640513003921 catalytic site [active] 640513003922 metal binding site [ion binding]; metal-binding site 640513003923 putative homotetramer interface [polypeptide binding]; other site 640513003924 putative homodimer interface [polypeptide binding]; other site 640513003925 glycerol binding site [chemical binding]; other site 640513003926 L-fucose isomerase and related proteins [Carbohydrate transport and metabolism]; Region: FucI; COG2407 640513003927 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cd00578 640513003928 hexamer (dimer of trimers) interface [polypeptide binding]; other site 640513003929 substrate binding site [chemical binding]; other site 640513003930 trimer interface [polypeptide binding]; other site 640513003931 Mn binding site [ion binding]; other site 640513003932 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 640513003933 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 640513003934 PYR/PP interface [polypeptide binding]; other site 640513003935 dimer interface [polypeptide binding]; other site 640513003936 TPP binding site [chemical binding]; other site 640513003937 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640513003938 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 640513003939 TPP-binding site [chemical binding]; other site 640513003940 dimer interface [polypeptide binding]; other site 640513003941 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 640513003942 MarR family; Region: MarR_2; cl17246 640513003943 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 640513003944 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 640513003945 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640513003946 TM-ABC transporter signature motif; other site 640513003947 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640513003948 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640513003949 Walker A/P-loop; other site 640513003950 ATP binding site [chemical binding]; other site 640513003951 Q-loop/lid; other site 640513003952 ABC transporter signature motif; other site 640513003953 Walker B; other site 640513003954 D-loop; other site 640513003955 H-loop/switch region; other site 640513003956 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640513003957 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; cl02395 640513003958 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 640513003959 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 640513003960 ligand binding site [chemical binding]; other site 640513003961 dimerization interface [polypeptide binding]; other site 640513003962 methionine synthase; Provisional; Region: PRK01207 640513003963 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 640513003964 substrate binding site [chemical binding]; other site 640513003965 THF binding site; other site 640513003966 zinc-binding site [ion binding]; other site 640513003967 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 640513003968 phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex; Provisional; Region: PRK10251 640513003969 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 640513003970 PAAR motif; Region: PAAR_motif; pfam05488 640513003971 outer membrane receptor FepA; Provisional; Region: PRK13524 640513003972 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 640513003973 N-terminal plug; other site 640513003974 ligand-binding site [chemical binding]; other site 640513003975 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 640513003976 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 640513003977 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 640513003978 MbtH-like protein; Region: MbtH; cl01279 640513003979 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 640513003980 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 640513003981 acyl-activating enzyme (AAE) consensus motif; other site 640513003982 AMP binding site [chemical binding]; other site 640513003983 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 640513003984 iron-enterobactin transporter ATP-binding protein; Provisional; Region: PRK10253 640513003985 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 640513003986 Walker A/P-loop; other site 640513003987 ATP binding site [chemical binding]; other site 640513003988 Q-loop/lid; other site 640513003989 ABC transporter signature motif; other site 640513003990 Walker B; other site 640513003991 D-loop; other site 640513003992 H-loop/switch region; other site 640513003993 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 640513003994 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 640513003995 ABC-ATPase subunit interface; other site 640513003996 dimer interface [polypeptide binding]; other site 640513003997 putative PBP binding regions; other site 640513003998 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 640513003999 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 640513004000 ABC-ATPase subunit interface; other site 640513004001 dimer interface [polypeptide binding]; other site 640513004002 putative PBP binding regions; other site 640513004003 enterobactin exporter EntS; Provisional; Region: PRK10489 640513004004 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 640513004005 putative substrate translocation pore; other site 640513004006 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 640513004007 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 640513004008 siderophore binding site; other site 640513004009 isochorismate synthase EntC; Provisional; Region: PRK15016 640513004010 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 640513004011 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 640513004012 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 640513004013 acyl-activating enzyme (AAE) consensus motif; other site 640513004014 active site 640513004015 AMP binding site [chemical binding]; other site 640513004016 substrate binding site [chemical binding]; other site 640513004017 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 640513004018 hydrophobic substrate binding pocket; other site 640513004019 Isochorismatase family; Region: Isochorismatase; pfam00857 640513004020 active site 640513004021 conserved cis-peptide bond; other site 640513004022 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 640513004023 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 640513004024 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 640513004025 putative NAD(P) binding site [chemical binding]; other site 640513004026 active site 640513004027 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 640513004028 CoenzymeA binding site [chemical binding]; other site 640513004029 subunit interaction site [polypeptide binding]; other site 640513004030 PHB binding site; other site 640513004031 hypothetical protein; Provisional; Region: PRK07338 640513004032 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 640513004033 metal binding site [ion binding]; metal-binding site 640513004034 dimer interface [polypeptide binding]; other site 640513004035 hypothetical protein; Provisional; Region: PRK10519 640513004036 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 640513004037 carbon starvation protein A; Provisional; Region: PRK15015 640513004038 Carbon starvation protein CstA; Region: CstA; pfam02554 640513004039 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 640513004040 Uncharacterized small protein [Function unknown]; Region: COG2879 640513004041 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640513004042 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 640513004043 salt bridge; other site 640513004044 non-specific DNA binding site [nucleotide binding]; other site 640513004045 sequence-specific DNA binding site [nucleotide binding]; other site 640513004046 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 640513004047 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640513004048 classical (c) SDRs; Region: SDR_c; cd05233 640513004049 NAD(P) binding site [chemical binding]; other site 640513004050 active site 640513004051 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 640513004052 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 640513004053 putative active site [active] 640513004054 metal binding site [ion binding]; metal-binding site 640513004055 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640513004056 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640513004057 Walker A/P-loop; other site 640513004058 ATP binding site [chemical binding]; other site 640513004059 Q-loop/lid; other site 640513004060 ABC transporter signature motif; other site 640513004061 Walker B; other site 640513004062 D-loop; other site 640513004063 H-loop/switch region; other site 640513004064 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640513004065 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640513004066 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 640513004067 TM-ABC transporter signature motif; other site 640513004068 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 640513004069 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 640513004070 putative ligand binding site [chemical binding]; other site 640513004071 Uncharacterized conserved protein [Function unknown]; Region: COG5276 640513004072 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 640513004073 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 640513004074 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 640513004075 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 640513004076 putative hydrophobic ligand binding site [chemical binding]; other site 640513004077 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 640513004078 Cupin domain; Region: Cupin_2; cl17218 640513004079 2,3-diketo-5-methylthio-1-phosphopentane phosphatase; Region: enolase-ppase; TIGR01691 640513004080 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 640513004081 motif II; other site 640513004082 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 640513004083 intersubunit interface [polypeptide binding]; other site 640513004084 active site 640513004085 Zn2+ binding site [ion binding]; other site 640513004086 methionine aminotransferase; Validated; Region: PRK09082 640513004087 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 640513004088 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513004089 homodimer interface [polypeptide binding]; other site 640513004090 catalytic residue [active] 640513004091 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 640513004092 ParB-like nuclease domain; Region: ParBc; pfam02195 640513004093 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 640513004094 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 640513004095 Active Sites [active] 640513004096 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 640513004097 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513004098 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513004099 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 640513004100 dimerization interface [polypeptide binding]; other site 640513004101 alkyl hydroperoxide reductase subunit C; Provisional; Region: PRK10382 640513004102 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 640513004103 dimer interface [polypeptide binding]; other site 640513004104 decamer (pentamer of dimers) interface [polypeptide binding]; other site 640513004105 catalytic triad [active] 640513004106 peroxidatic and resolving cysteines [active] 640513004107 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 640513004108 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 640513004109 catalytic residue [active] 640513004110 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 640513004111 catalytic residues [active] 640513004112 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640513004113 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640513004114 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 640513004115 Ligand Binding Site [chemical binding]; other site 640513004116 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 640513004117 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 640513004118 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640513004119 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640513004120 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 640513004121 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640513004122 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513004123 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 640513004124 dimerization domain swap beta strand [polypeptide binding]; other site 640513004125 regulatory protein interface [polypeptide binding]; other site 640513004126 active site 640513004127 regulatory phosphorylation site [posttranslational modification]; other site 640513004128 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 640513004129 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 640513004130 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 640513004131 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 640513004132 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 640513004133 active site 640513004134 phosphorylation site [posttranslational modification] 640513004135 exoaminopeptidase; Provisional; Region: PRK09961 640513004136 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 640513004137 metal binding site [ion binding]; metal-binding site 640513004138 aminopeptidase; Provisional; Region: PRK09795 640513004139 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 640513004140 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 640513004141 active site 640513004142 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 640513004143 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 640513004144 active site 640513004145 P-loop; other site 640513004146 phosphorylation site [posttranslational modification] 640513004147 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 640513004148 B1 nucleotide binding pocket [chemical binding]; other site 640513004149 B2 nucleotide binding pocket [chemical binding]; other site 640513004150 CAS motifs; other site 640513004151 active site 640513004152 C4-dicarboxylate transporter DcuC; Provisional; Region: dcuC; PRK10654 640513004153 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 640513004154 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 640513004155 Outer membrane efflux protein; Region: OEP; pfam02321 640513004156 Outer membrane efflux protein; Region: OEP; pfam02321 640513004157 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640513004158 HlyD family secretion protein; Region: HlyD_3; pfam13437 640513004159 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 640513004160 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 640513004161 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 640513004162 DNA-binding site [nucleotide binding]; DNA binding site 640513004163 RNA-binding motif; other site 640513004164 chromosome condensation membrane protein; Provisional; Region: PRK14196 640513004165 Predicted amidohydrolase [General function prediction only]; Region: COG0388 640513004166 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 640513004167 putative active site [active] 640513004168 catalytic triad [active] 640513004169 putative dimer interface [polypeptide binding]; other site 640513004170 twin arginine translocase protein E; Validated; Region: tatE; PRK03625 640513004171 lipoyl synthase; Provisional; Region: PRK05481 640513004172 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 640513004173 FeS/SAM binding site; other site 640513004174 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 640513004175 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513004176 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 640513004177 substrate binding pocket [chemical binding]; other site 640513004178 dimerization interface [polypeptide binding]; other site 640513004179 lipoate-protein ligase B; Provisional; Region: PRK14342 640513004180 hypothetical protein; Provisional; Region: PRK04998 640513004181 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 640513004182 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 640513004183 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 640513004184 rare lipoprotein A; Provisional; Region: PRK10672 640513004185 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 640513004186 Sporulation related domain; Region: SPOR; pfam05036 640513004187 cell wall shape-determining protein; Provisional; Region: PRK10794 640513004188 penicillin-binding protein 2; Provisional; Region: PRK10795 640513004189 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 640513004190 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 640513004191 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 640513004192 ribosome-associated protein; Provisional; Region: PRK11538 640513004193 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 640513004194 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 640513004195 active site 640513004196 (T/H)XGH motif; other site 640513004197 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 640513004198 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 640513004199 LPS-assembly lipoprotein RlpB; Provisional; Region: PRK10796 640513004200 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 640513004201 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 640513004202 HIGH motif; other site 640513004203 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 640513004204 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640513004205 active site 640513004206 KMSKS motif; other site 640513004207 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 640513004208 tRNA binding surface [nucleotide binding]; other site 640513004209 hypothetical protein; Provisional; Region: PRK11032 640513004210 SPX domain; Region: SPX; pfam03105 640513004211 Predicted integral membrane metal-binding protein (DUF2296); Region: DUF2296; pfam10058 640513004212 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 640513004213 active site 640513004214 tetramer interface [polypeptide binding]; other site 640513004215 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640513004216 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640513004217 Walker A/P-loop; other site 640513004218 ATP binding site [chemical binding]; other site 640513004219 Q-loop/lid; other site 640513004220 ABC transporter signature motif; other site 640513004221 Walker B; other site 640513004222 D-loop; other site 640513004223 H-loop/switch region; other site 640513004224 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640513004225 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 640513004226 dimer interface [polypeptide binding]; other site 640513004227 conserved gate region; other site 640513004228 putative PBP binding loops; other site 640513004229 ABC-ATPase subunit interface; other site 640513004230 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640513004231 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 640513004232 dimer interface [polypeptide binding]; other site 640513004233 conserved gate region; other site 640513004234 putative PBP binding loops; other site 640513004235 ABC-ATPase subunit interface; other site 640513004236 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 640513004237 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 640513004238 substrate binding pocket [chemical binding]; other site 640513004239 membrane-bound complex binding site; other site 640513004240 hinge residues; other site 640513004241 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 640513004242 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 640513004243 putative active site [active] 640513004244 catalytic triad [active] 640513004245 putative dimer interface [polypeptide binding]; other site 640513004246 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 640513004247 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 640513004248 Transporter associated domain; Region: CorC_HlyC; smart01091 640513004249 metal-binding heat shock protein; Provisional; Region: PRK00016 640513004250 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 640513004251 PhoH-like protein; Region: PhoH; pfam02562 640513004252 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 640513004253 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 640513004254 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 640513004255 FeS/SAM binding site; other site 640513004256 TRAM domain; Region: TRAM; pfam01938 640513004257 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 640513004258 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640513004259 asparagine synthetase B; Provisional; Region: asnB; PRK09431 640513004260 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 640513004261 active site 640513004262 dimer interface [polypeptide binding]; other site 640513004263 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 640513004264 Ligand Binding Site [chemical binding]; other site 640513004265 Molecular Tunnel; other site 640513004266 UMP phosphatase; Provisional; Region: PRK10444 640513004267 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 640513004268 active site 640513004269 motif I; other site 640513004270 motif II; other site 640513004271 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 640513004272 MarR family; Region: MarR; pfam01047 640513004273 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 640513004274 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 640513004275 nucleotide binding site [chemical binding]; other site 640513004276 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 640513004277 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 640513004278 active site 640513004279 dimer interface [polypeptide binding]; other site 640513004280 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 640513004281 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 640513004282 active site 640513004283 trimer interface [polypeptide binding]; other site 640513004284 allosteric site; other site 640513004285 active site lid [active] 640513004286 hexamer (dimer of trimers) interface [polypeptide binding]; other site 640513004287 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 640513004288 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 640513004289 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 640513004290 active site turn [active] 640513004291 phosphorylation site [posttranslational modification] 640513004292 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 640513004293 HPr interaction site; other site 640513004294 glycerol kinase (GK) interaction site [polypeptide binding]; other site 640513004295 active site 640513004296 phosphorylation site [posttranslational modification] 640513004297 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 640513004298 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640513004299 active site 640513004300 HIGH motif; other site 640513004301 nucleotide binding site [chemical binding]; other site 640513004302 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 640513004303 KMSKS motif; other site 640513004304 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 640513004305 outer membrane porin, OprD family; Region: OprD; pfam03573 640513004306 YbfN-like lipoprotein; Region: YbfN; pfam13982 640513004307 ferric uptake regulator; Provisional; Region: fur; PRK09462 640513004308 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 640513004309 metal binding site 2 [ion binding]; metal-binding site 640513004310 putative DNA binding helix; other site 640513004311 metal binding site 1 [ion binding]; metal-binding site 640513004312 dimer interface [polypeptide binding]; other site 640513004313 structural Zn2+ binding site [ion binding]; other site 640513004314 flavodoxin FldA; Validated; Region: PRK09267 640513004315 LexA regulated protein; Provisional; Region: PRK11675 640513004316 acyl-CoA esterase; Provisional; Region: PRK10673 640513004317 PGAP1-like protein; Region: PGAP1; pfam07819 640513004318 replication initiation regulator SeqA; Provisional; Region: PRK11187 640513004319 phosphoglucomutase; Validated; Region: PRK07564 640513004320 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 640513004321 active site 640513004322 substrate binding site [chemical binding]; other site 640513004323 metal binding site [ion binding]; metal-binding site 640513004324 putrescine transporter; Provisional; Region: potE; PRK10655 640513004325 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 640513004326 ornithine decarboxylase; Provisional; Region: PRK13578 640513004327 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 640513004328 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 640513004329 homodimer interface [polypeptide binding]; other site 640513004330 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513004331 catalytic residue [active] 640513004332 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 640513004333 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 640513004334 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 640513004335 active site 640513004336 phosphorylation site [posttranslational modification] 640513004337 intermolecular recognition site; other site 640513004338 dimerization interface [polypeptide binding]; other site 640513004339 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 640513004340 DNA binding site [nucleotide binding] 640513004341 sensor protein KdpD; Provisional; Region: PRK10490 640513004342 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 640513004343 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 640513004344 Ligand Binding Site [chemical binding]; other site 640513004345 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 640513004346 GAF domain; Region: GAF_3; pfam13492 640513004347 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 640513004348 dimer interface [polypeptide binding]; other site 640513004349 phosphorylation site [posttranslational modification] 640513004350 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 640513004351 ATP binding site [chemical binding]; other site 640513004352 Mg2+ binding site [ion binding]; other site 640513004353 G-X-G motif; other site 640513004354 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 640513004355 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 640513004356 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640513004357 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 640513004358 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 640513004359 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 640513004360 DNA photolyase; Region: DNA_photolyase; pfam00875 640513004361 Uncharacterized conserved protein [Function unknown]; Region: COG0327 640513004362 metal-binding protein; Provisional; Region: PRK10799 640513004363 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 640513004364 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 640513004365 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 640513004366 LamB/YcsF family protein; Provisional; Region: PRK05406 640513004367 endonuclease VIII; Provisional; Region: PRK10445 640513004368 N-terminal domain of Escherichia coli Nei/endonuclease VIII and related DNA glycosylases; Region: EcNei-like_N; cd08965 640513004369 DNA binding site [nucleotide binding] 640513004370 catalytic residue [active] 640513004371 putative catalytic residues [active] 640513004372 H2TH interface [polypeptide binding]; other site 640513004373 intercalation triad [nucleotide binding]; other site 640513004374 substrate specificity determining residue; other site 640513004375 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 640513004376 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 640513004377 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 640513004378 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 640513004379 dimer interface [polypeptide binding]; other site 640513004380 active site 640513004381 citrylCoA binding site [chemical binding]; other site 640513004382 NADH binding [chemical binding]; other site 640513004383 cationic pore residues; other site 640513004384 oxalacetate/citrate binding site [chemical binding]; other site 640513004385 coenzyme A binding site [chemical binding]; other site 640513004386 catalytic triad [active] 640513004387 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 640513004388 Iron-sulfur protein interface; other site 640513004389 proximal quinone binding site [chemical binding]; other site 640513004390 SdhD (CybS) interface [polypeptide binding]; other site 640513004391 proximal heme binding site [chemical binding]; other site 640513004392 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 640513004393 SdhC subunit interface [polypeptide binding]; other site 640513004394 proximal heme binding site [chemical binding]; other site 640513004395 cardiolipin binding site; other site 640513004396 Iron-sulfur protein interface; other site 640513004397 proximal quinone binding site [chemical binding]; other site 640513004398 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 640513004399 L-aspartate oxidase; Provisional; Region: PRK06175 640513004400 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 640513004401 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 640513004402 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 640513004403 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 640513004404 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 640513004405 TPP-binding site [chemical binding]; other site 640513004406 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 640513004407 dimer interface [polypeptide binding]; other site 640513004408 PYR/PP interface [polypeptide binding]; other site 640513004409 TPP binding site [chemical binding]; other site 640513004410 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 640513004411 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 640513004412 E3 interaction surface; other site 640513004413 lipoyl attachment site [posttranslational modification]; other site 640513004414 e3 binding domain; Region: E3_binding; pfam02817 640513004415 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 640513004416 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 640513004417 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 640513004418 CoA-ligase; Region: Ligase_CoA; pfam00549 640513004419 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 640513004420 CoA binding domain; Region: CoA_binding; smart00881 640513004421 CoA-ligase; Region: Ligase_CoA; pfam00549 640513004422 DNA-binding transcriptional repressor MngR; Provisional; Region: PRK09764 640513004423 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640513004424 DNA-binding site [nucleotide binding]; DNA binding site 640513004425 UTRA domain; Region: UTRA; pfam07702 640513004426 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 640513004427 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 640513004428 active site 640513004429 phosphorylation site [posttranslational modification] 640513004430 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 640513004431 active site 640513004432 P-loop; other site 640513004433 phosphorylation site [posttranslational modification] 640513004434 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 640513004435 alpha-mannosidase; Provisional; Region: PRK09819 640513004436 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 640513004437 active site 640513004438 metal binding site [ion binding]; metal-binding site 640513004439 catalytic site [active] 640513004440 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 640513004441 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 640513004442 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 640513004443 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003 640513004444 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 640513004445 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 640513004446 hypothetical protein; Provisional; Region: PRK10588 640513004447 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 640513004448 active site 640513004449 colicin uptake protein TolQ; Provisional; Region: PRK10801 640513004450 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 640513004451 colicin uptake protein TolR; Provisional; Region: PRK11024 640513004452 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 640513004453 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 640513004454 TolA C-terminal; Region: TolA; pfam06519 640513004455 translocation protein TolB; Provisional; Region: tolB; PRK03629 640513004456 TolB amino-terminal domain; Region: TolB_N; pfam04052 640513004457 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 640513004458 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 640513004459 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 640513004460 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 640513004461 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640513004462 ligand binding site [chemical binding]; other site 640513004463 tol-pal system protein YbgF; Provisional; Region: PRK10803 640513004464 Tetratricopeptide repeat; Region: TPR_6; pfam13174 640513004465 Tetratricopeptide repeat; Region: TPR_6; pfam13174 640513004466 quinolinate synthetase; Provisional; Region: PRK09375 640513004467 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 640513004468 zinc transporter ZitB; Provisional; Region: PRK03557 640513004469 YbgS-like protein; Region: YbgS; pfam13985 640513004470 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 640513004471 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 640513004472 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 640513004473 catalytic core [active] 640513004474 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 640513004475 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 640513004476 active site 640513004477 catalytic residues [active] 640513004478 galactokinase; Provisional; Region: PRK05101 640513004479 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 640513004480 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 640513004481 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 640513004482 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 640513004483 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 640513004484 dimer interface [polypeptide binding]; other site 640513004485 active site 640513004486 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 640513004487 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 640513004488 NAD binding site [chemical binding]; other site 640513004489 homodimer interface [polypeptide binding]; other site 640513004490 active site 640513004491 substrate binding site [chemical binding]; other site 640513004492 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 640513004493 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513004494 Walker A/P-loop; other site 640513004495 ATP binding site [chemical binding]; other site 640513004496 Q-loop/lid; other site 640513004497 ABC transporter signature motif; other site 640513004498 Walker B; other site 640513004499 D-loop; other site 640513004500 H-loop/switch region; other site 640513004501 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513004502 Walker A/P-loop; other site 640513004503 ATP binding site [chemical binding]; other site 640513004504 Q-loop/lid; other site 640513004505 ABC transporter signature motif; other site 640513004506 Walker B; other site 640513004507 D-loop; other site 640513004508 H-loop/switch region; other site 640513004509 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 640513004510 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 640513004511 molybdenum-pterin binding domain; Region: Mop; TIGR00638 640513004512 TOBE domain; Region: TOBE; pfam03459 640513004513 Protein of unknown function (DUF2592); Region: DUF2592; pfam10766 640513004514 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 640513004515 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 640513004516 substrate binding pocket [chemical binding]; other site 640513004517 membrane-bound complex binding site; other site 640513004518 hinge residues; other site 640513004519 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 640513004520 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 640513004521 dimer interface [polypeptide binding]; other site 640513004522 conserved gate region; other site 640513004523 putative PBP binding loops; other site 640513004524 ABC-ATPase subunit interface; other site 640513004525 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 640513004526 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513004527 Walker A/P-loop; other site 640513004528 ATP binding site [chemical binding]; other site 640513004529 Q-loop/lid; other site 640513004530 ABC transporter signature motif; other site 640513004531 Walker B; other site 640513004532 D-loop; other site 640513004533 H-loop/switch region; other site 640513004534 molybdenum-pterin binding domain; Region: Mop; TIGR00638 640513004535 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 640513004536 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 640513004537 active site 640513004538 motif I; other site 640513004539 motif II; other site 640513004540 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 640513004541 6-phosphogluconolactonase; Provisional; Region: PRK11028 640513004542 acyl-CoA thioesterase; Provisional; Region: PRK10531 640513004543 putative pectinesterase; Region: PLN02432; cl01911 640513004544 imidazolonepropionase; Validated; Region: PRK09356 640513004545 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 640513004546 active site 640513004547 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 640513004548 putative active site [active] 640513004549 putative metal binding site [ion binding]; other site 640513004550 histidine utilization repressor; Provisional; Region: PRK14999 640513004551 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640513004552 DNA-binding site [nucleotide binding]; DNA binding site 640513004553 UTRA domain; Region: UTRA; pfam07702 640513004554 urocanate hydratase; Provisional; Region: PRK05414 640513004555 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 640513004556 active sites [active] 640513004557 tetramer interface [polypeptide binding]; other site 640513004558 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 640513004559 substrate binding site [chemical binding]; other site 640513004560 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 640513004561 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 640513004562 inhibitor-cofactor binding pocket; inhibition site 640513004563 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513004564 catalytic residue [active] 640513004565 biotin synthase; Provisional; Region: PRK15108 640513004566 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 640513004567 FeS/SAM binding site; other site 640513004568 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 640513004569 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 640513004570 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 640513004571 substrate-cofactor binding pocket; other site 640513004572 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513004573 catalytic residue [active] 640513004574 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 640513004575 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 640513004576 S-adenosylmethionine binding site [chemical binding]; other site 640513004577 AAA domain; Region: AAA_26; pfam13500 640513004578 Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and...; Region: DTBS; cd03109 640513004579 ADP binding site [chemical binding]; other site 640513004580 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 640513004581 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640513004582 Walker A/P-loop; other site 640513004583 ATP binding site [chemical binding]; other site 640513004584 Q-loop/lid; other site 640513004585 ABC transporter signature motif; other site 640513004586 Walker B; other site 640513004587 D-loop; other site 640513004588 H-loop/switch region; other site 640513004589 excinuclease ABC subunit B; Provisional; Region: PRK05298 640513004590 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 640513004591 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 640513004592 ATP-binding site [chemical binding]; other site 640513004593 ATP binding site [chemical binding]; other site 640513004594 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 640513004595 nucleotide binding region [chemical binding]; other site 640513004596 ATP-binding site [chemical binding]; other site 640513004597 Ultra-violet resistance protein B; Region: UvrB; pfam12344 640513004598 UvrB/uvrC motif; Region: UVR; pfam02151 640513004599 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 640513004600 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 640513004601 phosphate binding site [ion binding]; other site 640513004602 putative substrate binding pocket [chemical binding]; other site 640513004603 dimer interface [polypeptide binding]; other site 640513004604 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 640513004605 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 640513004606 FeS/SAM binding site; other site 640513004607 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 640513004608 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 640513004609 MPT binding site; other site 640513004610 trimer interface [polypeptide binding]; other site 640513004611 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 640513004612 trimer interface [polypeptide binding]; other site 640513004613 dimer interface [polypeptide binding]; other site 640513004614 putative active site [active] 640513004615 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 640513004616 MoaE interaction surface [polypeptide binding]; other site 640513004617 MoeB interaction surface [polypeptide binding]; other site 640513004618 thiocarboxylated glycine; other site 640513004619 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 640513004620 MoaE homodimer interface [polypeptide binding]; other site 640513004621 MoaD interaction [polypeptide binding]; other site 640513004622 active site residues [active] 640513004623 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 640513004624 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 640513004625 Predicted integral membrane protein [Function unknown]; Region: COG0392 640513004626 cardiolipin synthase 2; Provisional; Region: PRK11263 640513004627 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 640513004628 putative active site [active] 640513004629 catalytic site [active] 640513004630 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 640513004631 putative active site [active] 640513004632 catalytic site [active] 640513004633 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 640513004634 putative catalytic site [active] 640513004635 putative metal binding site [ion binding]; other site 640513004636 putative phosphate binding site [ion binding]; other site 640513004637 Putative inner membrane protein YbhQ; Region: YbhQ; pfam11076 640513004638 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 640513004639 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 640513004640 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 640513004641 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 640513004642 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 640513004643 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 640513004644 Walker A/P-loop; other site 640513004645 ATP binding site [chemical binding]; other site 640513004646 Q-loop/lid; other site 640513004647 ABC transporter signature motif; other site 640513004648 Walker B; other site 640513004649 D-loop; other site 640513004650 H-loop/switch region; other site 640513004651 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 640513004652 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 640513004653 Walker A/P-loop; other site 640513004654 ATP binding site [chemical binding]; other site 640513004655 Q-loop/lid; other site 640513004656 ABC transporter signature motif; other site 640513004657 Walker B; other site 640513004658 D-loop; other site 640513004659 H-loop/switch region; other site 640513004660 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 640513004661 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640513004662 HlyD family secretion protein; Region: HlyD_3; pfam13437 640513004663 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 640513004664 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640513004665 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 640513004666 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 640513004667 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 640513004668 ATP binding site [chemical binding]; other site 640513004669 Mg++ binding site [ion binding]; other site 640513004670 motif III; other site 640513004671 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 640513004672 nucleotide binding region [chemical binding]; other site 640513004673 ATP-binding site [chemical binding]; other site 640513004674 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 640513004675 DEAD_2; Region: DEAD_2; pfam06733 640513004676 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 640513004677 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 640513004678 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 640513004679 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 640513004680 fimbrial assembly chaperone SthB; Provisional; Region: PRK15295 640513004681 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 640513004682 Fimbrial protein; Region: Fimbrial; cl01416 640513004683 glycosyl transferase family protein; Provisional; Region: PRK08136 640513004684 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 640513004685 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 640513004686 hypothetical protein; Provisional; Region: PRK11019 640513004687 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 640513004688 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 640513004689 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 640513004690 S-adenosylmethionine binding site [chemical binding]; other site 640513004691 putative mechanosensitive channel protein; Provisional; Region: PRK11465 640513004692 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640513004693 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 640513004694 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640513004695 Walker A/P-loop; other site 640513004696 ATP binding site [chemical binding]; other site 640513004697 Q-loop/lid; other site 640513004698 ABC transporter signature motif; other site 640513004699 Walker B; other site 640513004700 D-loop; other site 640513004701 H-loop/switch region; other site 640513004702 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640513004703 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 640513004704 dimer interface [polypeptide binding]; other site 640513004705 conserved gate region; other site 640513004706 putative PBP binding loops; other site 640513004707 ABC-ATPase subunit interface; other site 640513004708 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 640513004709 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 640513004710 substrate binding pocket [chemical binding]; other site 640513004711 membrane-bound complex binding site; other site 640513004712 hinge residues; other site 640513004713 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 640513004714 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 640513004715 dimerization interface [polypeptide binding]; other site 640513004716 DPS ferroxidase diiron center [ion binding]; other site 640513004717 ion pore; other site 640513004718 threonine and homoserine efflux system; Provisional; Region: PRK10532 640513004719 EamA-like transporter family; Region: EamA; pfam00892 640513004720 outer membrane protein X; Provisional; Region: ompX; PRK09408 640513004721 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 640513004722 Sulfatase; Region: Sulfatase; pfam00884 640513004723 manganese transport regulator MntR; Provisional; Region: PRK11050 640513004724 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 640513004725 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 640513004726 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 640513004727 Putative anion permease YbiR. Based on sequence similarity, YbiR proteins are predicted to function as anion translocating permeases in eubacteria, archaea and plants. They belong to ArsB/NhaD superfamily of permeases that have been shown to translocate...; Region: YbiR_permease; cd01117 640513004728 transmembrane helices; other site 640513004729 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 640513004730 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640513004731 HlyD family secretion protein; Region: HlyD_3; pfam13437 640513004732 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640513004733 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 640513004734 putative substrate translocation pore; other site 640513004735 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 640513004736 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640513004737 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 640513004738 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640513004739 active site 640513004740 catalytic tetrad [active] 640513004741 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 640513004742 beta-galactosidase; Region: BGL; TIGR03356 640513004743 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 640513004744 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 640513004745 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640513004746 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640513004747 DNA-binding site [nucleotide binding]; DNA binding site 640513004748 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 640513004749 L,D-transpeptidase; Provisional; Region: PRK10260 640513004750 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 640513004751 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 640513004752 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 640513004753 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640513004754 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640513004755 ABC transporter; Region: ABC_tran_2; pfam12848 640513004756 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640513004757 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 640513004758 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 640513004759 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 640513004760 putative active site [active] 640513004761 putative catalytic site [active] 640513004762 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 640513004763 D-galactonate transporter; Region: 2A0114; TIGR00893 640513004764 putative substrate translocation pore; other site 640513004765 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640513004766 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640513004767 DNA binding site [nucleotide binding] 640513004768 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 640513004769 ligand binding site [chemical binding]; other site 640513004770 dimerization interface [polypeptide binding]; other site 640513004771 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 640513004772 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 640513004773 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 640513004774 active site 640513004775 motif I; other site 640513004776 motif II; other site 640513004777 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 640513004778 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 640513004779 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 640513004780 dimer interface [polypeptide binding]; other site 640513004781 active site 640513004782 glycine loop; other site 640513004783 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 640513004784 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 640513004785 FeS/SAM binding site; other site 640513004786 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 640513004787 active site 640513004788 intersubunit interactions; other site 640513004789 catalytic residue [active] 640513004790 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 640513004791 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 640513004792 ATP binding site [chemical binding]; other site 640513004793 substrate interface [chemical binding]; other site 640513004794 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 640513004795 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 640513004796 dimer interface [polypeptide binding]; other site 640513004797 putative functional site; other site 640513004798 putative MPT binding site; other site 640513004799 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 640513004800 catalytic nucleophile [active] 640513004801 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 640513004802 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640513004803 Walker A/P-loop; other site 640513004804 ATP binding site [chemical binding]; other site 640513004805 Q-loop/lid; other site 640513004806 ABC transporter signature motif; other site 640513004807 Walker B; other site 640513004808 D-loop; other site 640513004809 H-loop/switch region; other site 640513004810 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 640513004811 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640513004812 Walker A/P-loop; other site 640513004813 ATP binding site [chemical binding]; other site 640513004814 Q-loop/lid; other site 640513004815 ABC transporter signature motif; other site 640513004816 Walker B; other site 640513004817 D-loop; other site 640513004818 H-loop/switch region; other site 640513004819 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 640513004820 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 640513004821 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 640513004822 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 640513004823 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 640513004824 dimer interface [polypeptide binding]; other site 640513004825 conserved gate region; other site 640513004826 putative PBP binding loops; other site 640513004827 ABC-ATPase subunit interface; other site 640513004828 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 640513004829 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 640513004830 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 640513004831 dimer interface [polypeptide binding]; other site 640513004832 conserved gate region; other site 640513004833 putative PBP binding loops; other site 640513004834 ABC-ATPase subunit interface; other site 640513004835 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 640513004836 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 640513004837 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 640513004838 FeS/SAM binding site; other site 640513004839 biofilm formation regulatory protein BssR; Reviewed; Region: bssR; PRK12302 640513004840 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 640513004841 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 640513004842 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640513004843 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 640513004844 putative C-terminal domain interface [polypeptide binding]; other site 640513004845 putative GSH binding site (G-site) [chemical binding]; other site 640513004846 putative dimer interface [polypeptide binding]; other site 640513004847 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 640513004848 putative N-terminal domain interface [polypeptide binding]; other site 640513004849 putative dimer interface [polypeptide binding]; other site 640513004850 putative substrate binding pocket (H-site) [chemical binding]; other site 640513004851 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 640513004852 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 640513004853 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 640513004854 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 640513004855 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 640513004856 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640513004857 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 640513004858 active site 640513004859 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 640513004860 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 640513004861 active site 640513004862 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 640513004863 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 640513004864 putative substrate translocation pore; other site 640513004865 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 640513004866 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 640513004867 active site 640513004868 motif I; other site 640513004869 motif II; other site 640513004870 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 640513004871 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 640513004872 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640513004873 putative substrate translocation pore; other site 640513004874 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640513004875 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640513004876 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640513004877 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640513004878 NAD(P) binding site [chemical binding]; other site 640513004879 active site 640513004880 putative transporter; Provisional; Region: PRK04972 640513004881 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 640513004882 TrkA-C domain; Region: TrkA_C; pfam02080 640513004883 TrkA-C domain; Region: TrkA_C; pfam02080 640513004884 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 640513004885 Putative inner membrane protein of Enterobacteriaceae; Region: YbjM; pfam11045 640513004886 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 640513004887 GSH binding site [chemical binding]; other site 640513004888 catalytic residues [active] 640513004889 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 640513004890 dimer interface [polypeptide binding]; other site 640513004891 FMN binding site [chemical binding]; other site 640513004892 NADPH bind site [chemical binding]; other site 640513004893 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 640513004894 RimK-like ATP-grasp domain; Region: RimK; pfam08443 640513004895 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 640513004896 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 640513004897 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 640513004898 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 640513004899 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513004900 Walker A/P-loop; other site 640513004901 ATP binding site [chemical binding]; other site 640513004902 Q-loop/lid; other site 640513004903 ABC transporter signature motif; other site 640513004904 Walker B; other site 640513004905 D-loop; other site 640513004906 H-loop/switch region; other site 640513004907 TOBE domain; Region: TOBE_2; pfam08402 640513004908 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 640513004909 dimer interface [polypeptide binding]; other site 640513004910 conserved gate region; other site 640513004911 putative PBP binding loops; other site 640513004912 ABC-ATPase subunit interface; other site 640513004913 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640513004914 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 640513004915 dimer interface [polypeptide binding]; other site 640513004916 conserved gate region; other site 640513004917 putative PBP binding loops; other site 640513004918 ABC-ATPase subunit interface; other site 640513004919 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 640513004920 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 640513004921 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 640513004922 S-adenosylmethionine binding site [chemical binding]; other site 640513004923 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 640513004924 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 640513004925 active site 640513004926 phosphorylation site [posttranslational modification] 640513004927 intermolecular recognition site; other site 640513004928 dimerization interface [polypeptide binding]; other site 640513004929 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 640513004930 DNA binding site [nucleotide binding] 640513004931 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 640513004932 dimer interface [polypeptide binding]; other site 640513004933 phosphorylation site [posttranslational modification] 640513004934 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 640513004935 ATP binding site [chemical binding]; other site 640513004936 Mg2+ binding site [ion binding]; other site 640513004937 G-X-G motif; other site 640513004938 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 640513004939 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 640513004940 substrate binding pocket [chemical binding]; other site 640513004941 membrane-bound complex binding site; other site 640513004942 hinge residues; other site 640513004943 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640513004944 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 640513004945 dimer interface [polypeptide binding]; other site 640513004946 conserved gate region; other site 640513004947 putative PBP binding loops; other site 640513004948 ABC-ATPase subunit interface; other site 640513004949 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640513004950 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 640513004951 dimer interface [polypeptide binding]; other site 640513004952 conserved gate region; other site 640513004953 putative PBP binding loops; other site 640513004954 ABC-ATPase subunit interface; other site 640513004955 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 640513004956 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 640513004957 substrate binding pocket [chemical binding]; other site 640513004958 membrane-bound complex binding site; other site 640513004959 hinge residues; other site 640513004960 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 640513004961 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513004962 Walker A/P-loop; other site 640513004963 ATP binding site [chemical binding]; other site 640513004964 Q-loop/lid; other site 640513004965 ABC transporter signature motif; other site 640513004966 Walker B; other site 640513004967 D-loop; other site 640513004968 H-loop/switch region; other site 640513004969 putative lipoprotein; Provisional; Region: PRK10533 640513004970 hypothetical protein; Provisional; Region: PRK02877 640513004971 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 640513004972 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 640513004973 amidase catalytic site [active] 640513004974 Zn binding residues [ion binding]; other site 640513004975 substrate binding site [chemical binding]; other site 640513004976 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 640513004977 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 640513004978 ligand binding site [chemical binding]; other site 640513004979 flexible hinge region; other site 640513004980 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 640513004981 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 640513004982 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 640513004983 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 640513004984 type II secretion system protein D; Region: type_II_gspD; TIGR02517 640513004985 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640513004986 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640513004987 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640513004988 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 640513004989 type II secretion system protein E; Region: type_II_gspE; TIGR02533 640513004990 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 640513004991 Walker A motif; other site 640513004992 ATP binding site [chemical binding]; other site 640513004993 Walker B motif; other site 640513004994 type II secretion system protein F; Region: GspF; TIGR02120 640513004995 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640513004996 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 640513004997 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 640513004998 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 640513004999 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 640513005000 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 640513005001 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 640513005002 Type II transport protein GspH; Region: GspH; pfam12019 640513005003 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 640513005004 type II secretion system protein I; Region: gspI; TIGR01707 640513005005 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 640513005006 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 640513005007 type II secretion system protein J; Region: gspJ; TIGR01711 640513005008 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 640513005009 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 640513005010 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 640513005011 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 640513005012 GspL periplasmic domain; Region: GspL_C; cl14909 640513005013 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 640513005014 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 640513005015 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 640513005016 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 640513005017 Chitinase A, N-terminal domain; Region: ChitinaseA_N; pfam08329 640513005018 Glyco_18 domain; Region: Glyco_18; smart00636 640513005019 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 640513005020 active site 640513005021 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 640513005022 aromatic chitin/cellulose binding site residues [chemical binding]; other site 640513005023 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 640513005024 aromatic chitin/cellulose binding site residues [chemical binding]; other site 640513005025 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 640513005026 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 640513005027 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640513005028 catalytic residue [active] 640513005029 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 640513005030 Glycoside hydrolase family 19 chitinase domain. Chitinases are enzymes that catalyze the hydrolysis of the beta-1,4-N-acetyl-D-glucosamine linkages in chitin polymers. Family 19 chitinases are found primarily in plants (classes I, III, and IV), but some...; Region: chitinase_glyco_hydro_19; cd00325 640513005031 putative sugar binding site [chemical binding]; other site 640513005032 catalytic residues [active] 640513005033 PKD domain; Region: PKD; pfam00801 640513005034 Chitin/cellulose binding domains of chitinase and related enzymes; Region: ChtBD3; cl00046 640513005035 aromatic chitin/cellulose binding site residues [chemical binding]; other site 640513005036 PAAR motif; Region: PAAR_motif; pfam05488 640513005037 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640513005038 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640513005039 NAD(P) binding site [chemical binding]; other site 640513005040 active site 640513005041 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 640513005042 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 640513005043 putative NAD(P) binding site [chemical binding]; other site 640513005044 putative active site [active] 640513005045 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 640513005046 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 640513005047 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 640513005048 tetramer interface [polypeptide binding]; other site 640513005049 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513005050 catalytic residue [active] 640513005051 pyruvate dehydrogenase; Provisional; Region: PRK09124 640513005052 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 640513005053 PYR/PP interface [polypeptide binding]; other site 640513005054 dimer interface [polypeptide binding]; other site 640513005055 tetramer interface [polypeptide binding]; other site 640513005056 TPP binding site [chemical binding]; other site 640513005057 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640513005058 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 640513005059 TPP-binding site [chemical binding]; other site 640513005060 Predicted membrane protein [Function unknown]; Region: COG2259 640513005061 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 640513005062 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 640513005063 FAD binding pocket [chemical binding]; other site 640513005064 FAD binding motif [chemical binding]; other site 640513005065 phosphate binding motif [ion binding]; other site 640513005066 beta-alpha-beta structure motif; other site 640513005067 NAD binding pocket [chemical binding]; other site 640513005068 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 640513005069 catalytic loop [active] 640513005070 iron binding site [ion binding]; other site 640513005071 hybrid cluster protein; Provisional; Region: PRK05290 640513005072 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 640513005073 ACS interaction site; other site 640513005074 CODH interaction site; other site 640513005075 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 640513005076 hybrid metal cluster; other site 640513005077 Predicted membrane protein [Function unknown]; Region: COG2431 640513005078 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 640513005079 amphipathic channel; other site 640513005080 Asn-Pro-Ala signature motifs; other site 640513005081 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 640513005082 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 640513005083 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 640513005084 putative active site [active] 640513005085 putative metal-binding site [ion binding]; other site 640513005086 Protein of unknown function (DUF535); Region: DUF535; pfam04393 640513005087 macrolide transporter subunit MacA; Provisional; Region: PRK11578 640513005088 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640513005089 HlyD family secretion protein; Region: HlyD_3; pfam13437 640513005090 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 640513005091 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 640513005092 Walker A/P-loop; other site 640513005093 ATP binding site [chemical binding]; other site 640513005094 Q-loop/lid; other site 640513005095 ABC transporter signature motif; other site 640513005096 Walker B; other site 640513005097 D-loop; other site 640513005098 H-loop/switch region; other site 640513005099 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 640513005100 FtsX-like permease family; Region: FtsX; pfam02687 640513005101 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 640513005102 DNA-binding site [nucleotide binding]; DNA binding site 640513005103 RNA-binding motif; other site 640513005104 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 640513005105 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 640513005106 Clp amino terminal domain; Region: Clp_N; pfam02861 640513005107 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 640513005108 Walker A motif; other site 640513005109 ATP binding site [chemical binding]; other site 640513005110 Walker B motif; other site 640513005111 arginine finger; other site 640513005112 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 640513005113 Walker A motif; other site 640513005114 ATP binding site [chemical binding]; other site 640513005115 Walker B motif; other site 640513005116 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 640513005117 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 640513005118 rRNA binding site [nucleotide binding]; other site 640513005119 predicted 30S ribosome binding site; other site 640513005120 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 640513005121 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 640513005122 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640513005123 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513005124 Walker A/P-loop; other site 640513005125 ATP binding site [chemical binding]; other site 640513005126 Q-loop/lid; other site 640513005127 ABC transporter signature motif; other site 640513005128 Walker B; other site 640513005129 D-loop; other site 640513005130 H-loop/switch region; other site 640513005131 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 640513005132 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640513005133 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513005134 Walker A/P-loop; other site 640513005135 ATP binding site [chemical binding]; other site 640513005136 Q-loop/lid; other site 640513005137 ABC transporter signature motif; other site 640513005138 Walker B; other site 640513005139 D-loop; other site 640513005140 H-loop/switch region; other site 640513005141 thioredoxin reductase; Provisional; Region: PRK10262 640513005142 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640513005143 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640513005144 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 640513005145 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 640513005146 putative DNA binding site [nucleotide binding]; other site 640513005147 putative Zn2+ binding site [ion binding]; other site 640513005148 AsnC family; Region: AsnC_trans_reg; pfam01037 640513005149 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 640513005150 Protein of unknown function (DUF998); Region: DUF998; pfam06197 640513005151 DNA translocase FtsK; Provisional; Region: PRK10263 640513005152 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 640513005153 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 640513005154 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 640513005155 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 640513005156 recombination factor protein RarA; Reviewed; Region: PRK13342 640513005157 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 640513005158 Walker A motif; other site 640513005159 ATP binding site [chemical binding]; other site 640513005160 Walker B motif; other site 640513005161 arginine finger; other site 640513005162 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 640513005163 seryl-tRNA synthetase; Provisional; Region: PRK05431 640513005164 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 640513005165 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 640513005166 dimer interface [polypeptide binding]; other site 640513005167 active site 640513005168 motif 1; other site 640513005169 motif 2; other site 640513005170 motif 3; other site 640513005171 anaerobic dimethyl sulfoxide reductase subunit A; Provisional; Region: PRK14990 640513005172 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 640513005173 putative [Fe4-S4] binding site [ion binding]; other site 640513005174 putative molybdopterin cofactor binding site [chemical binding]; other site 640513005175 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 640513005176 putative molybdopterin cofactor binding site; other site 640513005177 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 640513005178 4Fe-4S binding domain; Region: Fer4; pfam00037 640513005179 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 640513005180 putative MFS family transporter protein; Provisional; Region: PRK03633 640513005181 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 640513005182 putative substrate translocation pore; other site 640513005183 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 640513005184 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 640513005185 FeS/SAM binding site; other site 640513005186 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 640513005187 Pyruvate formate lyase 1; Region: PFL1; cd01678 640513005188 coenzyme A binding site [chemical binding]; other site 640513005189 active site 640513005190 catalytic residues [active] 640513005191 glycine loop; other site 640513005192 formate transporter; Provisional; Region: PRK10805 640513005193 uncharacterized domain; Region: TIGR00702 640513005194 YcaO-like family; Region: YcaO; pfam02624 640513005195 Predicted membrane protein [Function unknown]; Region: COG2323 640513005196 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 640513005197 homodimer interface [polypeptide binding]; other site 640513005198 substrate-cofactor binding pocket; other site 640513005199 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513005200 catalytic residue [active] 640513005201 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 640513005202 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 640513005203 hinge; other site 640513005204 active site 640513005205 cytidylate kinase; Provisional; Region: cmk; PRK00023 640513005206 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 640513005207 CMP-binding site; other site 640513005208 The sites determining sugar specificity; other site 640513005209 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 640513005210 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 640513005211 RNA binding site [nucleotide binding]; other site 640513005212 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 640513005213 RNA binding site [nucleotide binding]; other site 640513005214 S1_RPS1_repeat_ec4: 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_ec4; cd05689 640513005215 RNA binding site [nucleotide binding]; other site 640513005216 S1_RPS1_repeat_ec5: 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_ec5; cd05690 640513005217 RNA binding site [nucleotide binding]; other site 640513005218 S1_RPS1_repeat_ec6: 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_ec6; cd05691 640513005219 RNA binding site [nucleotide binding]; other site 640513005220 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 640513005221 IHF dimer interface [polypeptide binding]; other site 640513005222 IHF - DNA interface [nucleotide binding]; other site 640513005223 ComEC family competence protein; Provisional; Region: PRK11539 640513005224 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 640513005225 Competence protein; Region: Competence; pfam03772 640513005226 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 640513005227 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 640513005228 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640513005229 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 640513005230 Walker A/P-loop; other site 640513005231 ATP binding site [chemical binding]; other site 640513005232 Q-loop/lid; other site 640513005233 ABC transporter signature motif; other site 640513005234 Walker B; other site 640513005235 D-loop; other site 640513005236 H-loop/switch region; other site 640513005237 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 640513005238 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 640513005239 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 640513005240 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 640513005241 Trm112p-like protein; Region: Trm112p; cl01066 640513005242 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 640513005243 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 640513005244 Ligand binding site; other site 640513005245 oligomer interface; other site 640513005246 hypothetical protein; Provisional; Region: PRK10593 640513005247 Uncharacterized conserved protein [Function unknown]; Region: COG1434 640513005248 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 640513005249 putative active site [active] 640513005250 Methyltransferase domain; Region: Methyltransf_23; pfam13489 640513005251 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 640513005252 S-adenosylmethionine binding site [chemical binding]; other site 640513005253 condesin subunit F; Provisional; Region: PRK05260 640513005254 condesin subunit E; Provisional; Region: PRK05256 640513005255 cell division protein MukB; Provisional; Region: mukB; PRK04863 640513005256 P-loop containing region of AAA domain; Region: AAA_29; cl17516 640513005257 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 640513005258 murein L,D-transpeptidase; Provisional; Region: PRK10594 640513005259 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 640513005260 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 640513005261 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 640513005262 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 640513005263 Peptidase M15; Region: Peptidase_M15_3; cl01194 640513005264 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 640513005265 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 640513005266 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 640513005267 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513005268 homodimer interface [polypeptide binding]; other site 640513005269 catalytic residue [active] 640513005270 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640513005271 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 640513005272 trimer interface [polypeptide binding]; other site 640513005273 eyelet of channel; other site 640513005274 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 640513005275 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 640513005276 putative dimer interface [polypeptide binding]; other site 640513005277 putative anticodon binding site; other site 640513005278 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 640513005279 homodimer interface [polypeptide binding]; other site 640513005280 motif 1; other site 640513005281 motif 2; other site 640513005282 active site 640513005283 motif 3; other site 640513005284 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640513005285 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 640513005286 putative DNA binding site [nucleotide binding]; other site 640513005287 putative Zn2+ binding site [ion binding]; other site 640513005288 AsnC family; Region: AsnC_trans_reg; pfam01037 640513005289 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 640513005290 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 640513005291 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640513005292 catalytic residue [active] 640513005293 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 640513005294 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 640513005295 allantoate amidohydrolase; Reviewed; Region: PRK12893 640513005296 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 640513005297 active site 640513005298 metal binding site [ion binding]; metal-binding site 640513005299 dimer interface [polypeptide binding]; other site 640513005300 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 640513005301 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 640513005302 metal binding site [ion binding]; metal-binding site 640513005303 putative dimer interface [polypeptide binding]; other site 640513005304 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 640513005305 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. 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; Region: PncB_like; cd01401 640513005306 active site 640513005307 aminopeptidase N; Provisional; Region: pepN; PRK14015 640513005308 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 640513005309 active site 640513005310 Zn binding site [ion binding]; other site 640513005311 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 640513005312 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 640513005313 Walker A/P-loop; other site 640513005314 ATP binding site [chemical binding]; other site 640513005315 Q-loop/lid; other site 640513005316 ABC transporter signature motif; other site 640513005317 Walker B; other site 640513005318 D-loop; other site 640513005319 H-loop/switch region; other site 640513005320 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640513005321 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 640513005322 dimer interface [polypeptide binding]; other site 640513005323 conserved gate region; other site 640513005324 putative PBP binding loops; other site 640513005325 ABC-ATPase subunit interface; other site 640513005326 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 640513005327 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 640513005328 active site 640513005329 dimer interface [polypeptide binding]; other site 640513005330 non-prolyl cis peptide bond; other site 640513005331 insertion regions; other site 640513005332 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640513005333 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 640513005334 substrate binding pocket [chemical binding]; other site 640513005335 membrane-bound complex binding site; other site 640513005336 hinge residues; other site 640513005337 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 640513005338 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640513005339 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 640513005340 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 640513005341 quinone interaction residues [chemical binding]; other site 640513005342 active site 640513005343 catalytic residues [active] 640513005344 FMN binding site [chemical binding]; other site 640513005345 substrate binding site [chemical binding]; other site 640513005346 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 640513005347 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 640513005348 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 640513005349 MOSC domain; Region: MOSC; pfam03473 640513005350 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 640513005351 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 640513005352 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 640513005353 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 640513005354 S-adenosylmethionine binding site [chemical binding]; other site 640513005355 ABC transporter ATPase component; Reviewed; Region: PRK11147 640513005356 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513005357 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513005358 Walker A/P-loop; other site 640513005359 Walker A/P-loop; other site 640513005360 ATP binding site [chemical binding]; other site 640513005361 ATP binding site [chemical binding]; other site 640513005362 Q-loop/lid; other site 640513005363 Q-loop/lid; other site 640513005364 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640513005365 ABC transporter signature motif; other site 640513005366 Walker B; other site 640513005367 D-loop; other site 640513005368 ABC transporter; Region: ABC_tran_2; pfam12848 640513005369 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640513005370 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 640513005371 Paraquat-inducible protein A; Region: PqiA; pfam04403 640513005372 Paraquat-inducible protein A; Region: PqiA; pfam04403 640513005373 paraquat-inducible protein B; Provisional; Region: PRK10807 640513005374 mce related protein; Region: MCE; pfam02470 640513005375 mce related protein; Region: MCE; pfam02470 640513005376 mce related protein; Region: MCE; pfam02470 640513005377 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 640513005378 Protein of unknown function (DUF330); Region: DUF330; pfam03886 640513005379 Ribosome modulation factor; Region: RMF; pfam04957 640513005380 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 640513005381 active site 1 [active] 640513005382 dimer interface [polypeptide binding]; other site 640513005383 active site 2 [active] 640513005384 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 640513005385 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 640513005386 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 640513005387 outer membrane protein A; Reviewed; Region: PRK10808 640513005388 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 640513005389 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640513005390 ligand binding site [chemical binding]; other site 640513005391 SOS cell division inhibitor; Provisional; Region: PRK10595 640513005392 TfoX N-terminal domain; Region: TfoX_N; pfam04993 640513005393 TfoX C-terminal domain; Region: TfoX_C; pfam04994 640513005394 TIGR01666 family membrane protein; Region: YCCS 640513005395 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 640513005396 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 640513005397 Predicted membrane protein [Function unknown]; Region: COG3304 640513005398 Domain of unknown function (DUF307); Region: DUF307; pfam03733 640513005399 Domain of unknown function (DUF307); Region: DUF307; pfam03733 640513005400 DNA helicase IV; Provisional; Region: helD; PRK11054 640513005401 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 640513005402 Part of AAA domain; Region: AAA_19; pfam13245 640513005403 Family description; Region: UvrD_C_2; pfam13538 640513005404 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 640513005405 active site 640513005406 dimer interfaces [polypeptide binding]; other site 640513005407 catalytic residues [active] 640513005408 hypothetical protein; Provisional; Region: PRK03641 640513005409 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3110 640513005410 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 640513005411 heat shock protein HspQ; Provisional; Region: PRK14129 640513005412 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 640513005413 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 640513005414 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 640513005415 putative RNA binding site [nucleotide binding]; other site 640513005416 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 640513005417 S-adenosylmethionine binding site [chemical binding]; other site 640513005418 acylphosphatase; Provisional; Region: PRK14426 640513005419 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 640513005420 sulfur transfer protein TusE; Provisional; Region: PRK11508 640513005421 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 640513005422 YccA-like proteins; Region: YccA_like; cd10433 640513005423 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 640513005424 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 640513005425 peptide binding site [polypeptide binding]; other site 640513005426 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640513005427 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640513005428 DNA binding site [nucleotide binding] 640513005429 domain linker motif; other site 640513005430 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 640513005431 putative ligand binding site [chemical binding]; other site 640513005432 putative dimerization interface [polypeptide binding]; other site 640513005433 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 640513005434 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 640513005435 active site 640513005436 dimerization interface [polypeptide binding]; other site 640513005437 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 640513005438 active site 640513005439 catalytic residues [active] 640513005440 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 640513005441 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 640513005442 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513005443 Walker A/P-loop; other site 640513005444 ATP binding site [chemical binding]; other site 640513005445 Q-loop/lid; other site 640513005446 ABC transporter signature motif; other site 640513005447 Walker B; other site 640513005448 D-loop; other site 640513005449 H-loop/switch region; other site 640513005450 TOBE domain; Region: TOBE_2; pfam08402 640513005451 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 640513005452 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 640513005453 dimer interface [polypeptide binding]; other site 640513005454 conserved gate region; other site 640513005455 putative PBP binding loops; other site 640513005456 ABC-ATPase subunit interface; other site 640513005457 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 640513005458 dimer interface [polypeptide binding]; other site 640513005459 conserved gate region; other site 640513005460 putative PBP binding loops; other site 640513005461 ABC-ATPase subunit interface; other site 640513005462 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 640513005463 HlyD family secretion protein; Region: HlyD_3; pfam13437 640513005464 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 640513005465 A sub-family of peptidase family C39. 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...; Region: Peptidase_C39C; cd02419 640513005466 putative active site [active] 640513005467 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640513005468 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 640513005469 Walker A/P-loop; other site 640513005470 ATP binding site [chemical binding]; other site 640513005471 Q-loop/lid; other site 640513005472 ABC transporter signature motif; other site 640513005473 Walker B; other site 640513005474 D-loop; other site 640513005475 H-loop/switch region; other site 640513005476 Predicted membrane protein [Function unknown]; Region: COG2323 640513005477 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 640513005478 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640513005479 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 640513005480 active site 640513005481 metal binding site [ion binding]; metal-binding site 640513005482 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 640513005483 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 640513005484 FMN-binding pocket [chemical binding]; other site 640513005485 flavin binding motif; other site 640513005486 phosphate binding motif [ion binding]; other site 640513005487 beta-alpha-beta structure motif; other site 640513005488 NAD binding pocket [chemical binding]; other site 640513005489 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 640513005490 catalytic loop [active] 640513005491 iron binding site [ion binding]; other site 640513005492 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 640513005493 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 640513005494 [2Fe-2S] cluster binding site [ion binding]; other site 640513005495 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 640513005496 hydrophobic ligand binding site; other site 640513005497 hypothetical protein; Provisional; Region: PRK06847 640513005498 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 640513005499 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 640513005500 active site 640513005501 homotetramer interface [polypeptide binding]; other site 640513005502 guanine deaminase; Provisional; Region: PRK09228 640513005503 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 640513005504 active site 640513005505 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 640513005506 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 640513005507 Na binding site [ion binding]; other site 640513005508 putative substrate binding site [chemical binding]; other site 640513005509 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640513005510 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640513005511 DNA-binding site [nucleotide binding]; DNA binding site 640513005512 FCD domain; Region: FCD; pfam07729 640513005513 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 640513005514 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 640513005515 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 640513005516 active site 640513005517 catalytic site [active] 640513005518 tetramer interface [polypeptide binding]; other site 640513005519 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 640513005520 amidase; Provisional; Region: PRK09201 640513005521 Amidase; Region: Amidase; pfam01425 640513005522 Protein of unknown function (DUF4089); Region: DUF4089; pfam13318 640513005523 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 640513005524 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 640513005525 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640513005526 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640513005527 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 640513005528 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640513005529 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 640513005530 substrate binding pocket [chemical binding]; other site 640513005531 membrane-bound complex binding site; other site 640513005532 hinge residues; other site 640513005533 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640513005534 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 640513005535 dimer interface [polypeptide binding]; other site 640513005536 conserved gate region; other site 640513005537 putative PBP binding loops; other site 640513005538 ABC-ATPase subunit interface; other site 640513005539 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640513005540 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 640513005541 dimer interface [polypeptide binding]; other site 640513005542 conserved gate region; other site 640513005543 putative PBP binding loops; other site 640513005544 ABC-ATPase subunit interface; other site 640513005545 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640513005546 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640513005547 Walker A/P-loop; other site 640513005548 ATP binding site [chemical binding]; other site 640513005549 Q-loop/lid; other site 640513005550 ABC transporter signature motif; other site 640513005551 Walker B; other site 640513005552 D-loop; other site 640513005553 H-loop/switch region; other site 640513005554 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 640513005555 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640513005556 catalytic residue [active] 640513005557 allantoate amidohydrolase; Reviewed; Region: PRK09290 640513005558 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 640513005559 active site 640513005560 metal binding site [ion binding]; metal-binding site 640513005561 dimer interface [polypeptide binding]; other site 640513005562 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 640513005563 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 640513005564 Walker A/P-loop; other site 640513005565 ATP binding site [chemical binding]; other site 640513005566 Q-loop/lid; other site 640513005567 ABC transporter signature motif; other site 640513005568 Walker B; other site 640513005569 D-loop; other site 640513005570 H-loop/switch region; other site 640513005571 TOBE domain; Region: TOBE_2; pfam08402 640513005572 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 640513005573 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 640513005574 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 640513005575 dimer interface [polypeptide binding]; other site 640513005576 conserved gate region; other site 640513005577 ABC-ATPase subunit interface; other site 640513005578 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640513005579 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 640513005580 dimer interface [polypeptide binding]; other site 640513005581 conserved gate region; other site 640513005582 putative PBP binding loops; other site 640513005583 ABC-ATPase subunit interface; other site 640513005584 Arabinogalactan endo-1,4-beta-galactosidase [Carbohydrate transport and metabolism]; Region: COG3867 640513005585 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 640513005586 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 640513005587 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 640513005588 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 640513005589 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 640513005590 active site turn [active] 640513005591 phosphorylation site [posttranslational modification] 640513005592 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 640513005593 trimer interface; other site 640513005594 sugar binding site [chemical binding]; other site 640513005595 lac repressor; Reviewed; Region: lacI; PRK09526 640513005596 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640513005597 DNA binding site [nucleotide binding] 640513005598 domain linker motif; other site 640513005599 Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_LacI; cd01574 640513005600 ligand binding site [chemical binding]; other site 640513005601 dimerization interface (open form) [polypeptide binding]; other site 640513005602 dimerization interface (closed form) [polypeptide binding]; other site 640513005603 FOG: CBS domain [General function prediction only]; Region: COG0517 640513005604 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 640513005605 Divalent cation transporter; Region: MgtE; pfam01769 640513005606 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 640513005607 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 640513005608 Flavoprotein; Region: Flavoprotein; pfam02441 640513005609 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640513005610 MarR family; Region: MarR; pfam01047 640513005611 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640513005612 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 640513005613 conserved cys residue [active] 640513005614 benzoate transport; Region: 2A0115; TIGR00895 640513005615 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 640513005616 putative substrate translocation pore; other site 640513005617 aromatic amino acid exporter; Provisional; Region: PRK11689 640513005618 Uncharacterized protein family (UPF0254); Region: UPF0254; cl01641 640513005619 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640513005620 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640513005621 inhibitor site; inhibition site 640513005622 active site 640513005623 dimer interface [polypeptide binding]; other site 640513005624 catalytic residue [active] 640513005625 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640513005626 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 640513005627 NAD(P) binding site [chemical binding]; other site 640513005628 catalytic residues [active] 640513005629 Transcriptional regulators [Transcription]; Region: GntR; COG1802 640513005630 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640513005631 DNA-binding site [nucleotide binding]; DNA binding site 640513005632 FCD domain; Region: FCD; pfam07729 640513005633 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 640513005634 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 640513005635 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 640513005636 short chain dehydrogenase; Provisional; Region: PRK06500 640513005637 classical (c) SDRs; Region: SDR_c; cd05233 640513005638 NAD(P) binding site [chemical binding]; other site 640513005639 active site 640513005640 Predicted transcriptional regulators [Transcription]; Region: COG1733 640513005641 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 640513005642 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 640513005643 classical (c) SDRs; Region: SDR_c; cd05233 640513005644 NAD(P) binding site [chemical binding]; other site 640513005645 active site 640513005646 Predicted transcriptional regulators [Transcription]; Region: COG1733 640513005647 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 640513005648 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 640513005649 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 640513005650 catalytic core [active] 640513005651 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 640513005652 hypothetical protein; Provisional; Region: PRK10174 640513005653 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 640513005654 General stress protein [General function prediction only]; Region: GsiB; COG3729 640513005655 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640513005656 EamA-like transporter family; Region: EamA; pfam00892 640513005657 EamA-like transporter family; Region: EamA; pfam00892 640513005658 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 640513005659 pyrimidine utilization flavin reductase protein F; Region: RutF; TIGR03615 640513005660 Nitroreductase-like family 5. 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_5; cd02148 640513005661 putative FMN binding site [chemical binding]; other site 640513005662 pyrimidine utilization protein D; Region: RutD; TIGR03611 640513005663 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 640513005664 homotrimer interaction site [polypeptide binding]; other site 640513005665 putative active site [active] 640513005666 Isochorismatase family; Region: Isochorismatase; pfam00857 640513005667 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 640513005668 catalytic triad [active] 640513005669 conserved cis-peptide bond; other site 640513005670 pyrimidine utilization protein A; Region: RutA; TIGR03612 640513005671 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 640513005672 active site 640513005673 dimer interface [polypeptide binding]; other site 640513005674 non-prolyl cis peptide bond; other site 640513005675 insertion regions; other site 640513005676 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 640513005677 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; cl07446 640513005678 AAA domain; Region: AAA_21; pfam13304 640513005679 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513005680 Walker A/P-loop; other site 640513005681 ATP binding site [chemical binding]; other site 640513005682 Q-loop/lid; other site 640513005683 HNH endonuclease; Region: HNH; pfam01844 640513005684 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 640513005685 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640513005686 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 640513005687 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 640513005688 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 640513005689 Predicted transcriptional regulator [Transcription]; Region: COG3905 640513005690 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 640513005691 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 640513005692 Glutamate binding site [chemical binding]; other site 640513005693 NAD binding site [chemical binding]; other site 640513005694 catalytic residues [active] 640513005695 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 640513005696 Na binding site [ion binding]; other site 640513005697 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 640513005698 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 640513005699 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 640513005700 Nucleoside recognition; Region: Gate; pfam07670 640513005701 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 640513005702 FTR1 family protein; Region: TIGR00145 640513005703 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 640513005704 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 640513005705 Imelysin; Region: Peptidase_M75; pfam09375 640513005706 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 640513005707 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 640513005708 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 640513005709 hypothetical protein; Provisional; Region: PRK10536 640513005710 Isochorismatase family; Region: Isochorismatase; pfam00857 640513005711 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 640513005712 catalytic triad [active] 640513005713 dimer interface [polypeptide binding]; other site 640513005714 conserved cis-peptide bond; other site 640513005715 Pirin-related protein [General function prediction only]; Region: COG1741 640513005716 Pirin; Region: Pirin; pfam02678 640513005717 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 640513005718 LysR family transcriptional regulator; Provisional; Region: PRK14997 640513005719 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513005720 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 640513005721 putative effector binding pocket; other site 640513005722 putative dimerization interface [polypeptide binding]; other site 640513005723 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 640513005724 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 640513005725 putative ligand binding site [chemical binding]; other site 640513005726 NAD binding site [chemical binding]; other site 640513005727 dimerization interface [polypeptide binding]; other site 640513005728 catalytic site [active] 640513005729 putative hydrolase; Validated; Region: PRK09248 640513005730 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 640513005731 active site 640513005732 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 640513005733 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 640513005734 curli production assembly/transport protein CsgG; Provisional; Region: PRK15184 640513005735 curli assembly protein CsgF; Provisional; Region: PRK10050 640513005736 curli assembly protein CsgE; Provisional; Region: PRK10386 640513005737 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 640513005738 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 640513005739 DNA binding residues [nucleotide binding] 640513005740 dimerization interface [polypeptide binding]; other site 640513005741 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 640513005742 Curlin associated repeat; Region: Curlin_rpt; pfam07012 640513005743 major curlin subunit; Provisional; Region: csgA; PRK10051 640513005744 Curlin associated repeat; Region: Curlin_rpt; pfam07012 640513005745 Thin aggregative fimbriae synthesis protein; Region: Tafi-CsgC; cl11667 640513005746 Fimbrial protein; Region: Fimbrial; cl01416 640513005747 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 640513005748 putative ADP-ribose binding site [chemical binding]; other site 640513005749 putative active site [active] 640513005750 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 640513005751 Acyltransferase family; Region: Acyl_transf_3; pfam01757 640513005752 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 640513005753 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; pfam04349 640513005754 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640513005755 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 640513005756 Ligand binding site; other site 640513005757 DXD motif; other site 640513005758 lipoprotein; Provisional; Region: PRK10175 640513005759 secY/secA suppressor protein; Provisional; Region: PRK11467 640513005760 drug efflux system protein MdtG; Provisional; Region: PRK09874 640513005761 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 640513005762 putative substrate translocation pore; other site 640513005763 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 640513005764 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 640513005765 putative acyl-acceptor binding pocket; other site 640513005766 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 640513005767 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 640513005768 active site residue [active] 640513005769 hypothetical protein; Provisional; Region: PRK03757 640513005770 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 640513005771 Protein of unknown function (DUF2770); Region: DUF2770; pfam10968 640513005772 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 640513005773 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640513005774 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 640513005775 DNA damage-inducible protein I; Provisional; Region: PRK10597 640513005776 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 640513005777 active site 640513005778 substrate binding pocket [chemical binding]; other site 640513005779 dimer interface [polypeptide binding]; other site 640513005780 lipoprotein; Provisional; Region: PRK10598 640513005781 multidrug resistance protein MdtH; Provisional; Region: PRK11646 640513005782 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 640513005783 putative substrate translocation pore; other site 640513005784 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional; Region: PRK10809 640513005785 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 640513005786 hypothetical protein; Provisional; Region: PRK11239 640513005787 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3132 640513005788 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640513005789 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640513005790 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 640513005791 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 640513005792 flagella synthesis chaperone protein FlgN; Provisional; Region: PRK15459 640513005793 anti-sigma28 factor FlgM; Provisional; Region: PRK10810 640513005794 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 640513005795 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 640513005796 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 640513005797 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 640513005798 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 640513005799 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 640513005800 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 640513005801 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 640513005802 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 640513005803 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 640513005804 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 640513005805 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 640513005806 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 640513005807 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 640513005808 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 640513005809 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgF; COG4787 640513005810 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 640513005811 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 640513005812 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 640513005813 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 640513005814 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 640513005815 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 640513005816 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 640513005817 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 640513005818 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 640513005819 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 640513005820 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 640513005821 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 640513005822 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 640513005823 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 640513005824 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 640513005825 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 640513005826 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 640513005827 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640513005828 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 640513005829 putative substrate translocation pore; other site 640513005830 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513005831 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513005832 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 640513005833 putative effector binding pocket; other site 640513005834 dimerization interface [polypeptide binding]; other site 640513005835 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 640513005836 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 640513005837 homodimer interface [polypeptide binding]; other site 640513005838 oligonucleotide binding site [chemical binding]; other site 640513005839 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 640513005840 Maf-like protein; Region: Maf; pfam02545 640513005841 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 640513005842 active site 640513005843 dimer interface [polypeptide binding]; other site 640513005844 hypothetical protein; Provisional; Region: PRK11193 640513005845 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 640513005846 putative phosphate acyltransferase; Provisional; Region: PRK05331 640513005847 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 640513005848 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 640513005849 dimer interface [polypeptide binding]; other site 640513005850 active site 640513005851 CoA binding pocket [chemical binding]; other site 640513005852 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 640513005853 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 640513005854 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640513005855 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 640513005856 NAD(P) binding site [chemical binding]; other site 640513005857 homotetramer interface [polypeptide binding]; other site 640513005858 homodimer interface [polypeptide binding]; other site 640513005859 active site 640513005860 acyl carrier protein; Provisional; Region: acpP; PRK00982 640513005861 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 640513005862 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 640513005863 dimer interface [polypeptide binding]; other site 640513005864 active site 640513005865 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 640513005866 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 640513005867 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513005868 catalytic residue [active] 640513005869 conserved hypothetical protein, YceG family; Region: TIGR00247 640513005870 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 640513005871 dimerization interface [polypeptide binding]; other site 640513005872 thymidylate kinase; Validated; Region: tmk; PRK00698 640513005873 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 640513005874 TMP-binding site; other site 640513005875 ATP-binding site [chemical binding]; other site 640513005876 DNA polymerase III subunit delta'; Validated; Region: PRK07993 640513005877 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 640513005878 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 640513005879 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 640513005880 active site 640513005881 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 640513005882 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 640513005883 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 640513005884 active site turn [active] 640513005885 phosphorylation site [posttranslational modification] 640513005886 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 640513005887 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 640513005888 N-terminal plug; other site 640513005889 ligand-binding site [chemical binding]; other site 640513005890 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 640513005891 nucleotide binding site/active site [active] 640513005892 HIT family signature motif; other site 640513005893 catalytic residue [active] 640513005894 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 640513005895 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 640513005896 putative dimer interface [polypeptide binding]; other site 640513005897 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 640513005898 thiamine kinase; Region: ycfN_thiK; TIGR02721 640513005899 thiamine kinase; Provisional; Region: thiK; PRK10271 640513005900 beta-hexosaminidase; Provisional; Region: PRK05337 640513005901 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 640513005902 hypothetical protein; Provisional; Region: PRK04940 640513005903 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 640513005904 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640513005905 hypothetical protein; Provisional; Region: PRK11280 640513005906 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 640513005907 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 640513005908 N-terminal plug; other site 640513005909 ligand-binding site [chemical binding]; other site 640513005910 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640513005911 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640513005912 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 640513005913 L,D-transpeptidase; Provisional; Region: PRK10190 640513005914 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640513005915 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 640513005916 transcription-repair coupling factor; Provisional; Region: PRK10689 640513005917 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 640513005918 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 640513005919 ATP binding site [chemical binding]; other site 640513005920 putative Mg++ binding site [ion binding]; other site 640513005921 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 640513005922 nucleotide binding region [chemical binding]; other site 640513005923 ATP-binding site [chemical binding]; other site 640513005924 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 640513005925 Predicted membrane protein [Function unknown]; Region: COG4763 640513005926 Acyltransferase family; Region: Acyl_transf_3; pfam01757 640513005927 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 640513005928 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 640513005929 FtsX-like permease family; Region: FtsX; pfam02687 640513005930 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 640513005931 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 640513005932 Walker A/P-loop; other site 640513005933 ATP binding site [chemical binding]; other site 640513005934 Q-loop/lid; other site 640513005935 ABC transporter signature motif; other site 640513005936 Walker B; other site 640513005937 D-loop; other site 640513005938 H-loop/switch region; other site 640513005939 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 640513005940 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 640513005941 FtsX-like permease family; Region: FtsX; pfam02687 640513005942 fructokinase; Reviewed; Region: PRK09557 640513005943 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 640513005944 nucleotide binding site [chemical binding]; other site 640513005945 NAD-dependent deacetylase; Provisional; Region: PRK00481 640513005946 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 640513005947 NAD+ binding site [chemical binding]; other site 640513005948 substrate binding site [chemical binding]; other site 640513005949 Zn binding site [ion binding]; other site 640513005950 Cache domain; Region: Cache_1; pfam02743 640513005951 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640513005952 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640513005953 dimer interface [polypeptide binding]; other site 640513005954 putative CheW interface [polypeptide binding]; other site 640513005955 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 640513005956 EAL domain; Region: EAL; pfam00563 640513005957 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 640513005958 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 640513005959 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640513005960 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 640513005961 dimer interface [polypeptide binding]; other site 640513005962 conserved gate region; other site 640513005963 putative PBP binding loops; other site 640513005964 ABC-ATPase subunit interface; other site 640513005965 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 640513005966 dimer interface [polypeptide binding]; other site 640513005967 conserved gate region; other site 640513005968 putative PBP binding loops; other site 640513005969 ABC-ATPase subunit interface; other site 640513005970 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 640513005971 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513005972 Walker A/P-loop; other site 640513005973 ATP binding site [chemical binding]; other site 640513005974 Q-loop/lid; other site 640513005975 ABC transporter signature motif; other site 640513005976 Walker B; other site 640513005977 D-loop; other site 640513005978 H-loop/switch region; other site 640513005979 TOBE domain; Region: TOBE_2; pfam08402 640513005980 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 640513005981 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 640513005982 metal binding site [ion binding]; metal-binding site 640513005983 dimer interface [polypeptide binding]; other site 640513005984 Uncharacterized conserved protein [Function unknown]; Region: COG2850 640513005985 sensor protein PhoQ; Provisional; Region: PRK10815 640513005986 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 640513005987 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 640513005988 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 640513005989 ATP binding site [chemical binding]; other site 640513005990 Mg2+ binding site [ion binding]; other site 640513005991 G-X-G motif; other site 640513005992 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 640513005993 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 640513005994 active site 640513005995 phosphorylation site [posttranslational modification] 640513005996 intermolecular recognition site; other site 640513005997 dimerization interface [polypeptide binding]; other site 640513005998 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 640513005999 DNA binding site [nucleotide binding] 640513006000 adenylosuccinate lyase; Provisional; Region: PRK09285 640513006001 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 640513006002 tetramer interface [polypeptide binding]; other site 640513006003 active site 640513006004 putative lysogenization regulator; Reviewed; Region: PRK00218 640513006005 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 640513006006 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 640513006007 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 640513006008 nudix motif; other site 640513006009 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 640513006010 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 640513006011 probable active site [active] 640513006012 isocitrate dehydrogenase; Validated; Region: PRK07362 640513006013 isocitrate dehydrogenase; Reviewed; Region: PRK07006 640513006014 Protein of unknown function (DUF2543); Region: DUF2543; pfam10820 640513006015 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 640513006016 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 640513006017 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; cd01948 640513006018 phage resistance protein; Provisional; Region: PRK10551 640513006019 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 640513006020 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; cd01948 640513006021 hypothetical protein; Provisional; Region: PRK10457 640513006022 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 640513006023 GAF domain; Region: GAF; pfam01590 640513006024 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640513006025 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640513006026 metal binding site [ion binding]; metal-binding site 640513006027 active site 640513006028 I-site; other site 640513006029 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 640513006030 Domain of unknown function (DUF333); Region: DUF333; pfam03891 640513006031 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 640513006032 Uncharacterized conserved protein [Function unknown]; Region: COG3189 640513006033 hypothetical protein; Validated; Region: PRK06186 640513006034 conserved cys residue [active] 640513006035 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 640513006036 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 640513006037 putative substrate translocation pore; other site 640513006038 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640513006039 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513006040 Predicted membrane protein [Function unknown]; Region: COG2707 640513006041 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cl00022 640513006042 putative deacylase active site [active] 640513006043 diguanylate cyclase; Provisional; Region: PRK09894 640513006044 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 640513006045 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640513006046 metal binding site [ion binding]; metal-binding site 640513006047 active site 640513006048 I-site; other site 640513006049 hypothetical protein; Provisional; Region: PRK05325 640513006050 PrkA family serine protein kinase; Provisional; Region: PRK15455 640513006051 AAA ATPase domain; Region: AAA_16; pfam13191 640513006052 Walker A motif; other site 640513006053 ATP binding site [chemical binding]; other site 640513006054 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 640513006055 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 640513006056 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 640513006057 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640513006058 active site 640513006059 catalytic tetrad [active] 640513006060 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 640513006061 active site 640513006062 phosphate binding residues; other site 640513006063 catalytic residues [active] 640513006064 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 640513006065 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 640513006066 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 640513006067 methionine sulfoxide reductase B; Provisional; Region: PRK00222 640513006068 SelR domain; Region: SelR; pfam01641 640513006069 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3139 640513006070 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 640513006071 Glyco_18 domain; Region: Glyco_18; smart00636 640513006072 active site 640513006073 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 640513006074 Isochorismatase family; Region: Isochorismatase; pfam00857 640513006075 catalytic triad [active] 640513006076 metal binding site [ion binding]; metal-binding site 640513006077 conserved cis-peptide bond; other site 640513006078 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 640513006079 active site 640513006080 homodimer interface [polypeptide binding]; other site 640513006081 protease 4; Provisional; Region: PRK10949 640513006082 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 640513006083 tandem repeat interface [polypeptide binding]; other site 640513006084 oligomer interface [polypeptide binding]; other site 640513006085 active site residues [active] 640513006086 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_1; cd07019 640513006087 tandem repeat interface [polypeptide binding]; other site 640513006088 oligomer interface [polypeptide binding]; other site 640513006089 active site residues [active] 640513006090 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 640513006091 putative FMN binding site [chemical binding]; other site 640513006092 selenophosphate synthetase; Provisional; Region: PRK00943 640513006093 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 640513006094 dimerization interface [polypeptide binding]; other site 640513006095 putative ATP binding site [chemical binding]; other site 640513006096 DNA topoisomerase III; Provisional; Region: PRK07726 640513006097 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 640513006098 active site 640513006099 putative interdomain interaction site [polypeptide binding]; other site 640513006100 putative metal-binding site [ion binding]; other site 640513006101 putative nucleotide binding site [chemical binding]; other site 640513006102 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 640513006103 domain I; other site 640513006104 DNA binding groove [nucleotide binding] 640513006105 phosphate binding site [ion binding]; other site 640513006106 domain II; other site 640513006107 domain III; other site 640513006108 nucleotide binding site [chemical binding]; other site 640513006109 catalytic site [active] 640513006110 domain IV; other site 640513006111 glutamate dehydrogenase; Provisional; Region: PRK09414 640513006112 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 640513006113 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 640513006114 NAD(P) binding site [chemical binding]; other site 640513006115 Protein of unknown function (DUF1496); Region: DUF1496; pfam07383 640513006116 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 640513006117 active site 640513006118 8-oxo-dGMP binding site [chemical binding]; other site 640513006119 nudix motif; other site 640513006120 metal binding site [ion binding]; metal-binding site 640513006121 Uncharacterized conserved protein [Function unknown]; Region: COG2128 640513006122 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 640513006123 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 640513006124 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 640513006125 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 640513006126 active site residue [active] 640513006127 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 640513006128 active site residue [active] 640513006129 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 640513006130 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513006131 Walker A/P-loop; other site 640513006132 ATP binding site [chemical binding]; other site 640513006133 Q-loop/lid; other site 640513006134 ABC transporter signature motif; other site 640513006135 Walker B; other site 640513006136 D-loop; other site 640513006137 H-loop/switch region; other site 640513006138 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 640513006139 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 640513006140 dimer interface [polypeptide binding]; other site 640513006141 conserved gate region; other site 640513006142 putative PBP binding loops; other site 640513006143 ABC-ATPase subunit interface; other site 640513006144 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 640513006145 ABC-ATPase subunit interface; other site 640513006146 putative PBP binding loops; other site 640513006147 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 640513006148 hypothetical protein; Provisional; Region: PRK11622 640513006149 Uncharacterized conserved protein [Function unknown]; Region: COG0398 640513006150 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 640513006151 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 640513006152 putative catalytic site [active] 640513006153 putative phosphate binding site [ion binding]; other site 640513006154 active site 640513006155 metal binding site A [ion binding]; metal-binding site 640513006156 DNA binding site [nucleotide binding] 640513006157 putative AP binding site [nucleotide binding]; other site 640513006158 putative metal binding site B [ion binding]; other site 640513006159 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 640513006160 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 640513006161 inhibitor-cofactor binding pocket; inhibition site 640513006162 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513006163 catalytic residue [active] 640513006164 arginine succinyltransferase; Provisional; Region: PRK10456 640513006165 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 640513006166 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 640513006167 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 640513006168 NAD(P) binding site [chemical binding]; other site 640513006169 catalytic residues [active] 640513006170 succinylarginine dihydrolase; Provisional; Region: PRK13281 640513006171 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 640513006172 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 640513006173 putative active site [active] 640513006174 Zn binding site [ion binding]; other site 640513006175 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 640513006176 dimer interface [polypeptide binding]; other site 640513006177 hypothetical protein; Provisional; Region: PRK11396 640513006178 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 640513006179 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 640513006180 GIY-YIG motif/motif A; other site 640513006181 active site 640513006182 catalytic site [active] 640513006183 putative DNA binding site [nucleotide binding]; other site 640513006184 metal binding site [ion binding]; metal-binding site 640513006185 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 640513006186 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 640513006187 homodimer interface [polypeptide binding]; other site 640513006188 NAD binding pocket [chemical binding]; other site 640513006189 ATP binding pocket [chemical binding]; other site 640513006190 Mg binding site [ion binding]; other site 640513006191 active-site loop [active] 640513006192 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 640513006193 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 640513006194 active site 640513006195 P-loop; other site 640513006196 phosphorylation site [posttranslational modification] 640513006197 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIC; Provisional; Region: PRK10297 640513006198 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 640513006199 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 640513006200 active site 640513006201 methionine cluster; other site 640513006202 phosphorylation site [posttranslational modification] 640513006203 metal binding site [ion binding]; metal-binding site 640513006204 DNA-binding transcriptional regulator ChbR; Provisional; Region: PRK10296 640513006205 Cupin domain; Region: Cupin_2; pfam07883 640513006206 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 640513006207 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 640513006208 NAD binding site [chemical binding]; other site 640513006209 sugar binding site [chemical binding]; other site 640513006210 divalent metal binding site [ion binding]; other site 640513006211 tetramer (dimer of dimers) interface [polypeptide binding]; other site 640513006212 dimer interface [polypeptide binding]; other site 640513006213 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 640513006214 putative active site [active] 640513006215 YdjC motif; other site 640513006216 Mg binding site [ion binding]; other site 640513006217 putative homodimer interface [polypeptide binding]; other site 640513006218 hydroperoxidase II; Provisional; Region: katE; PRK11249 640513006219 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 640513006220 tetramer interface [polypeptide binding]; other site 640513006221 heme binding pocket [chemical binding]; other site 640513006222 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 640513006223 domain interactions; other site 640513006224 cell division modulator; Provisional; Region: PRK10113 640513006225 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 640513006226 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640513006227 inner membrane protein; Provisional; Region: PRK11648 640513006228 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 640513006229 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 640513006230 NADP binding site [chemical binding]; other site 640513006231 homodimer interface [polypeptide binding]; other site 640513006232 active site 640513006233 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 640513006234 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 640513006235 motif II; other site 640513006236 YniB-like protein; Region: YniB; pfam14002 640513006237 Phosphotransferase enzyme family; Region: APH; pfam01636 640513006238 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 640513006239 active site 640513006240 ATP binding site [chemical binding]; other site 640513006241 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 640513006242 active site 640513006243 ATP binding site [chemical binding]; other site 640513006244 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 640513006245 6-phosphofructokinase 2; Provisional; Region: PRK10294 640513006246 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 640513006247 putative substrate binding site [chemical binding]; other site 640513006248 putative ATP binding site [chemical binding]; other site 640513006249 Putative salt-induced outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG3137 640513006250 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 640513006251 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 640513006252 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 640513006253 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 640513006254 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 640513006255 active site 640513006256 dimer interface [polypeptide binding]; other site 640513006257 motif 1; other site 640513006258 motif 2; other site 640513006259 motif 3; other site 640513006260 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 640513006261 anticodon binding site; other site 640513006262 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 640513006263 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 640513006264 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 640513006265 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 640513006266 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 640513006267 23S rRNA binding site [nucleotide binding]; other site 640513006268 L21 binding site [polypeptide binding]; other site 640513006269 L13 binding site [polypeptide binding]; other site 640513006270 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 640513006271 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 640513006272 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 640513006273 dimer interface [polypeptide binding]; other site 640513006274 motif 1; other site 640513006275 active site 640513006276 motif 2; other site 640513006277 motif 3; other site 640513006278 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 640513006279 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 640513006280 putative tRNA-binding site [nucleotide binding]; other site 640513006281 B3/4 domain; Region: B3_4; pfam03483 640513006282 tRNA synthetase B5 domain; Region: B5; smart00874 640513006283 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 640513006284 dimer interface [polypeptide binding]; other site 640513006285 motif 1; other site 640513006286 motif 3; other site 640513006287 motif 2; other site 640513006288 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 640513006289 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 640513006290 IHF dimer interface [polypeptide binding]; other site 640513006291 IHF - DNA interface [nucleotide binding]; other site 640513006292 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 640513006293 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 640513006294 ABC-ATPase subunit interface; other site 640513006295 dimer interface [polypeptide binding]; other site 640513006296 putative PBP binding regions; other site 640513006297 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 640513006298 catalytic residues [active] 640513006299 dimer interface [polypeptide binding]; other site 640513006300 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 640513006301 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 640513006302 Walker A/P-loop; other site 640513006303 ATP binding site [chemical binding]; other site 640513006304 Q-loop/lid; other site 640513006305 ABC transporter signature motif; other site 640513006306 Walker B; other site 640513006307 D-loop; other site 640513006308 H-loop/switch region; other site 640513006309 NlpC/P60 family; Region: NLPC_P60; pfam00877 640513006310 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 640513006311 Uncharacterized conserved protein [Function unknown]; Region: COG0397 640513006312 hypothetical protein; Validated; Region: PRK00029 640513006313 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 640513006314 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 640513006315 Walker A/P-loop; other site 640513006316 ATP binding site [chemical binding]; other site 640513006317 Q-loop/lid; other site 640513006318 ABC transporter signature motif; other site 640513006319 Walker B; other site 640513006320 D-loop; other site 640513006321 H-loop/switch region; other site 640513006322 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 640513006323 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 640513006324 ABC-ATPase subunit interface; other site 640513006325 dimer interface [polypeptide binding]; other site 640513006326 putative PBP binding regions; other site 640513006327 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 640513006328 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 640513006329 putative hemin binding site; other site 640513006330 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 640513006331 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 640513006332 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 640513006333 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 640513006334 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 640513006335 N-terminal plug; other site 640513006336 ligand-binding site [chemical binding]; other site 640513006337 Hemin uptake protein hemP; Region: hemP; cl10043 640513006338 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 640513006339 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 640513006340 PEP synthetase regulatory protein; Provisional; Region: PRK05339 640513006341 phosphoenolpyruvate synthase; Validated; Region: PRK06464 640513006342 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 640513006343 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 640513006344 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 640513006345 putative symporter YagG; Provisional; Region: PRK09669 640513006346 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 640513006347 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 640513006348 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 640513006349 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 640513006350 putative inner membrane protein; Provisional; Region: PRK10983 640513006351 Domain of unknown function DUF20; Region: UPF0118; pfam01594 640513006352 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 640513006353 FAD binding domain; Region: FAD_binding_4; pfam01565 640513006354 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 640513006355 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 640513006356 CoenzymeA binding site [chemical binding]; other site 640513006357 subunit interaction site [polypeptide binding]; other site 640513006358 PHB binding site; other site 640513006359 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 640513006360 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 640513006361 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 640513006362 [4Fe-4S] binding site [ion binding]; other site 640513006363 molybdopterin cofactor binding site; other site 640513006364 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 640513006365 molybdopterin cofactor binding site; other site 640513006366 Biofilm development protein YmgB/AriR; Region: YmgB; pfam10798 640513006367 Sensors of blue-light using FAD; Region: BLUF; pfam04940 640513006368 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; cd01948 640513006369 transcriptional regulator MirA; Provisional; Region: PRK15043 640513006370 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 640513006371 DNA binding residues [nucleotide binding] 640513006372 iron-sulfur cluster assembly scaffold protein; Provisional; Region: sufA; PRK09504 640513006373 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 640513006374 putative ABC transporter; Region: ycf24; CHL00085 640513006375 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 640513006376 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 640513006377 Walker A/P-loop; other site 640513006378 ATP binding site [chemical binding]; other site 640513006379 Q-loop/lid; other site 640513006380 ABC transporter signature motif; other site 640513006381 Walker B; other site 640513006382 D-loop; other site 640513006383 H-loop/switch region; other site 640513006384 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 640513006385 FeS assembly protein SufD; Region: sufD; TIGR01981 640513006386 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 640513006387 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 640513006388 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640513006389 catalytic residue [active] 640513006390 cysteine desufuration protein SufE; Provisional; Region: PRK09296 640513006391 L,D-transpeptidase; Provisional; Region: PRK10260 640513006392 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640513006393 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 640513006394 murein lipoprotein; Provisional; Region: PRK15396 640513006395 pyruvate kinase; Provisional; Region: PRK09206 640513006396 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 640513006397 domain interfaces; other site 640513006398 active site 640513006399 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 640513006400 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 640513006401 homodimer interface [polypeptide binding]; other site 640513006402 substrate-cofactor binding pocket; other site 640513006403 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513006404 catalytic residue [active] 640513006405 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 640513006406 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 640513006407 dimer interface [polypeptide binding]; other site 640513006408 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513006409 catalytic residue [active] 640513006410 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 640513006411 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 640513006412 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 640513006413 Walker A/P-loop; other site 640513006414 ATP binding site [chemical binding]; other site 640513006415 Q-loop/lid; other site 640513006416 ABC transporter signature motif; other site 640513006417 Walker B; other site 640513006418 D-loop; other site 640513006419 H-loop/switch region; other site 640513006420 NIL domain; Region: NIL; pfam09383 640513006421 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 640513006422 dimer interface [polypeptide binding]; other site 640513006423 conserved gate region; other site 640513006424 putative PBP binding loops; other site 640513006425 ABC-ATPase subunit interface; other site 640513006426 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 640513006427 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 640513006428 hypothetical protein; Provisional; Region: PRK10292 640513006429 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 640513006430 dimer interface [polypeptide binding]; other site 640513006431 conserved gate region; other site 640513006432 putative PBP binding loops; other site 640513006433 ABC-ATPase subunit interface; other site 640513006434 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 640513006435 dimer interface [polypeptide binding]; other site 640513006436 conserved gate region; other site 640513006437 putative PBP binding loops; other site 640513006438 ABC-ATPase subunit interface; other site 640513006439 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640513006440 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640513006441 Walker A/P-loop; other site 640513006442 ATP binding site [chemical binding]; other site 640513006443 Q-loop/lid; other site 640513006444 ABC transporter signature motif; other site 640513006445 Walker B; other site 640513006446 D-loop; other site 640513006447 H-loop/switch region; other site 640513006448 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640513006449 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 640513006450 substrate binding pocket [chemical binding]; other site 640513006451 membrane-bound complex binding site; other site 640513006452 hinge residues; other site 640513006453 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 640513006454 dimer interface [polypeptide binding]; other site 640513006455 phosphorylation site [posttranslational modification] 640513006456 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 640513006457 ATP binding site [chemical binding]; other site 640513006458 Mg2+ binding site [ion binding]; other site 640513006459 G-X-G motif; other site 640513006460 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 640513006461 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 640513006462 active site 640513006463 phosphorylation site [posttranslational modification] 640513006464 intermolecular recognition site; other site 640513006465 dimerization interface [polypeptide binding]; other site 640513006466 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 640513006467 DNA binding residues [nucleotide binding] 640513006468 dimerization interface [polypeptide binding]; other site 640513006469 Domain of unknown function (DUF336); Region: DUF336; pfam03928 640513006470 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 640513006471 active site clefts [active] 640513006472 zinc binding site [ion binding]; other site 640513006473 dimer interface [polypeptide binding]; other site 640513006474 hypothetical protein; Provisional; Region: PRK09897 640513006475 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 640513006476 multidrug efflux protein; Reviewed; Region: PRK01766 640513006477 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 640513006478 cation binding site [ion binding]; other site 640513006479 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 640513006480 Lumazine binding domain; Region: Lum_binding; pfam00677 640513006481 Lumazine binding domain; Region: Lum_binding; pfam00677 640513006482 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 640513006483 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 640513006484 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 640513006485 S-adenosylmethionine binding site [chemical binding]; other site 640513006486 putative transporter; Provisional; Region: PRK11043 640513006487 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 640513006488 putative substrate translocation pore; other site 640513006489 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 640513006490 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513006491 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 640513006492 dimerization interface [polypeptide binding]; other site 640513006493 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 640513006494 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640513006495 DNA binding site [nucleotide binding] 640513006496 domain linker motif; other site 640513006497 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 640513006498 dimerization interface [polypeptide binding]; other site 640513006499 ligand binding site [chemical binding]; other site 640513006500 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 640513006501 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640513006502 putative substrate translocation pore; other site 640513006503 superoxide dismutase; Provisional; Region: PRK10543 640513006504 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 640513006505 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 640513006506 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 640513006507 NlpC/P60 family; Region: NLPC_P60; pfam00877 640513006508 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 640513006509 putative GSH binding site [chemical binding]; other site 640513006510 catalytic residues [active] 640513006511 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 640513006512 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 640513006513 dimer interface [polypeptide binding]; other site 640513006514 catalytic site [active] 640513006515 putative active site [active] 640513006516 putative substrate binding site [chemical binding]; other site 640513006517 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 640513006518 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 640513006519 dimer interface [polypeptide binding]; other site 640513006520 active site 640513006521 metal binding site [ion binding]; metal-binding site 640513006522 glutathione binding site [chemical binding]; other site 640513006523 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 640513006524 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 640513006525 FMN binding site [chemical binding]; other site 640513006526 active site 640513006527 substrate binding site [chemical binding]; other site 640513006528 catalytic residue [active] 640513006529 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640513006530 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640513006531 Predicted Fe-S protein [General function prediction only]; Region: COG3313 640513006532 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 640513006533 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640513006534 active site 640513006535 catalytic tetrad [active] 640513006536 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 640513006537 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 640513006538 E-class dimer interface [polypeptide binding]; other site 640513006539 P-class dimer interface [polypeptide binding]; other site 640513006540 active site 640513006541 Cu2+ binding site [ion binding]; other site 640513006542 Zn2+ binding site [ion binding]; other site 640513006543 Fusaric acid resistance protein family; Region: FUSC; pfam04632 640513006544 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 640513006545 HlyD family secretion protein; Region: HlyD; pfam00529 640513006546 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640513006547 HlyD family secretion protein; Region: HlyD_3; pfam13437 640513006548 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 640513006549 transcriptional regulator SlyA; Provisional; Region: PRK03573 640513006550 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 640513006551 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640513006552 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640513006553 metal binding site [ion binding]; metal-binding site 640513006554 active site 640513006555 I-site; other site 640513006556 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 640513006557 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 640513006558 lysozyme inhibitor; Provisional; Region: PRK11372 640513006559 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 640513006560 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 640513006561 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 640513006562 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 640513006563 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 640513006564 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 640513006565 active site 640513006566 HIGH motif; other site 640513006567 dimer interface [polypeptide binding]; other site 640513006568 KMSKS motif; other site 640513006569 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 640513006570 RNA binding surface [nucleotide binding]; other site 640513006571 pyridoxamine kinase; Validated; Region: PRK05756 640513006572 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 640513006573 dimer interface [polypeptide binding]; other site 640513006574 pyridoxal binding site [chemical binding]; other site 640513006575 ATP binding site [chemical binding]; other site 640513006576 glutathionine S-transferase; Provisional; Region: PRK10542 640513006577 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 640513006578 C-terminal domain interface [polypeptide binding]; other site 640513006579 GSH binding site (G-site) [chemical binding]; other site 640513006580 dimer interface [polypeptide binding]; other site 640513006581 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 640513006582 N-terminal domain interface [polypeptide binding]; other site 640513006583 dimer interface [polypeptide binding]; other site 640513006584 substrate binding pocket (H-site) [chemical binding]; other site 640513006585 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 640513006586 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 640513006587 putative substrate translocation pore; other site 640513006588 POT family; Region: PTR2; pfam00854 640513006589 endonuclease III; Provisional; Region: PRK10702 640513006590 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 640513006591 minor groove reading motif; other site 640513006592 helix-hairpin-helix signature motif; other site 640513006593 substrate binding pocket [chemical binding]; other site 640513006594 active site 640513006595 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 640513006596 electron transport complex RsxE subunit; Provisional; Region: PRK12405 640513006597 electron transport complex protein RnfG; Validated; Region: PRK01908 640513006598 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 640513006599 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 640513006600 SLBB domain; Region: SLBB; pfam10531 640513006601 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 640513006602 electron transport complex protein RnfB; Provisional; Region: PRK05113 640513006603 Putative Fe-S cluster; Region: FeS; cl17515 640513006604 4Fe-4S binding domain; Region: Fer4; pfam00037 640513006605 electron transport complex protein RsxA; Provisional; Region: PRK05151 640513006606 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 640513006607 oriC-binding nucleoid-associated protein; Provisional; Region: PRK10391 640513006608 putative oxidoreductase; Provisional; Region: PRK11579 640513006609 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640513006610 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 640513006611 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 640513006612 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 640513006613 active site 640513006614 purine riboside binding site [chemical binding]; other site 640513006615 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 640513006616 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 640513006617 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513006618 homodimer interface [polypeptide binding]; other site 640513006619 catalytic residue [active] 640513006620 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 640513006621 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 640513006622 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 640513006623 active site turn [active] 640513006624 phosphorylation site [posttranslational modification] 640513006625 DNA-binding transcriptional repressor MalI; Provisional; Region: PRK10014 640513006626 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640513006627 DNA binding site [nucleotide binding] 640513006628 domain linker motif; other site 640513006629 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640513006630 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 640513006631 PLD-like domain; Region: PLDc_2; pfam13091 640513006632 putative active site [active] 640513006633 catalytic site [active] 640513006634 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 640513006635 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 640513006636 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 640513006637 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 640513006638 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 640513006639 fumarate hydratase; Provisional; Region: PRK15389 640513006640 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 640513006641 Fumarase C-terminus; Region: Fumerase_C; pfam05683 640513006642 fumarate hydratase; Reviewed; Region: fumC; PRK00485 640513006643 Class II fumarases; Region: Fumarase_classII; cd01362 640513006644 active site 640513006645 tetramer interface [polypeptide binding]; other site 640513006646 DNA replication terminus site-binding protein; Provisional; Region: PRK02951 640513006647 sensor protein RstB; Provisional; Region: PRK10604 640513006648 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 640513006649 dimerization interface [polypeptide binding]; other site 640513006650 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 640513006651 dimer interface [polypeptide binding]; other site 640513006652 phosphorylation site [posttranslational modification] 640513006653 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 640513006654 ATP binding site [chemical binding]; other site 640513006655 Mg2+ binding site [ion binding]; other site 640513006656 G-X-G motif; other site 640513006657 Methyltransferase domain; Region: Methyltransf_31; pfam13847 640513006658 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 640513006659 S-adenosylmethionine binding site [chemical binding]; other site 640513006660 hypothetical protein; Provisional; Region: PRK13687 640513006661 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 640513006662 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 640513006663 active site 640513006664 phosphorylation site [posttranslational modification] 640513006665 intermolecular recognition site; other site 640513006666 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 640513006667 DNA binding site [nucleotide binding] 640513006668 GlpM protein; Region: GlpM; pfam06942 640513006669 dihydromonapterin reductase; Provisional; Region: PRK06483 640513006670 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640513006671 NAD(P) binding site [chemical binding]; other site 640513006672 active site 640513006673 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 640513006674 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 640513006675 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 640513006676 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 640513006677 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 640513006678 ligand binding site [chemical binding]; other site 640513006679 homodimer interface [polypeptide binding]; other site 640513006680 NAD(P) binding site [chemical binding]; other site 640513006681 trimer interface B [polypeptide binding]; other site 640513006682 trimer interface A [polypeptide binding]; other site 640513006683 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 640513006684 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 640513006685 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 640513006686 universal stress protein UspE; Provisional; Region: PRK11175 640513006687 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 640513006688 Ligand Binding Site [chemical binding]; other site 640513006689 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 640513006690 Ligand Binding Site [chemical binding]; other site 640513006691 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cl00298 640513006692 active site 640513006693 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 640513006694 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 640513006695 ligand binding site [chemical binding]; other site 640513006696 flexible hinge region; other site 640513006697 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 640513006698 putative switch regulator; other site 640513006699 non-specific DNA interactions [nucleotide binding]; other site 640513006700 DNA binding site [nucleotide binding] 640513006701 sequence specific DNA binding site [nucleotide binding]; other site 640513006702 putative cAMP binding site [chemical binding]; other site 640513006703 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 640513006704 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 640513006705 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 640513006706 DNA binding site [nucleotide binding] 640513006707 active site 640513006708 putative aminobenzoyl-glutamate transporter; Provisional; Region: abgT; PRK11339 640513006709 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 640513006710 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 640513006711 amidohydrolase; Region: amidohydrolases; TIGR01891 640513006712 putative metal binding site [ion binding]; other site 640513006713 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 640513006714 amidohydrolase; Region: amidohydrolases; TIGR01891 640513006715 putative metal binding site [ion binding]; other site 640513006716 dimer interface [polypeptide binding]; other site 640513006717 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 640513006718 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513006719 The C-terminal substrate binding domain of LysR-type transcriptional regulator TdcA, which is involved in the degradation of L-serine and L-threonine, contains the type 2 periplasmic binding fold; Region: PBP2_TdcA; cd08418 640513006720 putative substrate binding pocket [chemical binding]; other site 640513006721 putative dimerization interface [polypeptide binding]; other site 640513006722 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 640513006723 Smr domain; Region: Smr; pfam01713 640513006724 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 640513006725 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640513006726 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513006727 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 640513006728 dimerization interface [polypeptide binding]; other site 640513006729 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 640513006730 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 640513006731 dimer interface [polypeptide binding]; other site 640513006732 ligand binding site [chemical binding]; other site 640513006733 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 640513006734 dimerization interface [polypeptide binding]; other site 640513006735 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640513006736 dimer interface [polypeptide binding]; other site 640513006737 putative CheW interface [polypeptide binding]; other site 640513006738 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 640513006739 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640513006740 active site 640513006741 catalytic tetrad [active] 640513006742 Protein of unknown function (DUF1593); Region: DUF1593; pfam07632 640513006743 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 640513006744 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 640513006745 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 640513006746 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 640513006747 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 640513006748 active site 640513006749 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 640513006750 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; cd01948 640513006751 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 640513006752 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 640513006753 Catalytic site [active] 640513006754 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 640513006755 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 640513006756 active site 640513006757 DNA binding site [nucleotide binding] 640513006758 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 640513006759 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 640513006760 2-enoyl thioester reductase-like; Region: ETR_like; cd05282 640513006761 NADP binding site [chemical binding]; other site 640513006762 dimer interface [polypeptide binding]; other site 640513006763 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; PRK12287 640513006764 Domain of unknown function DUF20; Region: UPF0118; pfam01594 640513006765 multidrug efflux system protein MdtJ; Provisional; Region: PRK10452 640513006766 multidrug efflux system protein MdtI; Provisional; Region: PRK10650 640513006767 CHASE4 domain; Region: CHASE4; pfam05228 640513006768 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640513006769 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640513006770 metal binding site [ion binding]; metal-binding site 640513006771 active site 640513006772 I-site; other site 640513006773 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; cd01948 640513006774 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 640513006775 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640513006776 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 640513006777 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 640513006778 active site 640513006779 Zn binding site [ion binding]; other site 640513006780 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 640513006781 Putative bacterial virulence factor; Region: Virul_Fac; pfam10139 640513006782 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 640513006783 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640513006784 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 640513006785 putative substrate translocation pore; other site 640513006786 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513006787 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513006788 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 640513006789 dimerization interface [polypeptide binding]; other site 640513006790 substrate binding pocket [chemical binding]; other site 640513006791 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 640513006792 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 640513006793 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 640513006794 nucleotide binding site [chemical binding]; other site 640513006795 putative dithiobiotin synthetase; Provisional; Region: PRK12374 640513006796 AAA domain; Region: AAA_26; pfam13500 640513006797 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 640513006798 Cl- selectivity filter; other site 640513006799 Cl- binding residues [ion binding]; other site 640513006800 pore gating glutamate residue; other site 640513006801 dimer interface [polypeptide binding]; other site 640513006802 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 640513006803 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 640513006804 Walker A/P-loop; other site 640513006805 ATP binding site [chemical binding]; other site 640513006806 Q-loop/lid; other site 640513006807 ABC transporter signature motif; other site 640513006808 Walker B; other site 640513006809 D-loop; other site 640513006810 H-loop/switch region; other site 640513006811 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc; cd04582 640513006812 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 640513006813 dimer interface [polypeptide binding]; other site 640513006814 conserved gate region; other site 640513006815 ABC-ATPase subunit interface; other site 640513006816 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 640513006817 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 640513006818 putative PBP binding loops; other site 640513006819 dimer interface [polypeptide binding]; other site 640513006820 ABC-ATPase subunit interface; other site 640513006821 atypical (a) SDRs, subgroup 3; Region: SDR_a3; cd05229 640513006822 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 640513006823 putative NAD(P) binding site [chemical binding]; other site 640513006824 putative active site [active] 640513006825 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 640513006826 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 640513006827 DNA binding residues [nucleotide binding] 640513006828 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640513006829 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 640513006830 putative substrate translocation pore; other site 640513006831 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640513006832 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 640513006833 putative DNA binding site [nucleotide binding]; other site 640513006834 putative Zn2+ binding site [ion binding]; other site 640513006835 AsnC family; Region: AsnC_trans_reg; pfam01037 640513006836 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640513006837 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 640513006838 putative C-terminal domain interface [polypeptide binding]; other site 640513006839 putative GSH binding site (G-site) [chemical binding]; other site 640513006840 putative dimer interface [polypeptide binding]; other site 640513006841 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 640513006842 putative N-terminal domain interface [polypeptide binding]; other site 640513006843 putative dimer interface [polypeptide binding]; other site 640513006844 putative substrate binding pocket (H-site) [chemical binding]; other site 640513006845 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640513006846 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 640513006847 putative substrate translocation pore; other site 640513006848 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 640513006849 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 640513006850 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513006851 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513006852 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 640513006853 putative effector binding pocket; other site 640513006854 putative dimerization interface [polypeptide binding]; other site 640513006855 Protein of unknown function (DUF770); Region: DUF770; pfam05591 640513006856 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 640513006857 Protein of unknown function (DUF877); Region: DUF877; pfam05943 640513006858 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 640513006859 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 640513006860 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 640513006861 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 640513006862 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640513006863 ligand binding site [chemical binding]; other site 640513006864 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 640513006865 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 640513006866 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 640513006867 Walker A motif; other site 640513006868 ATP binding site [chemical binding]; other site 640513006869 Walker B motif; other site 640513006870 arginine finger; other site 640513006871 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 640513006872 Walker A motif; other site 640513006873 ATP binding site [chemical binding]; other site 640513006874 Walker B motif; other site 640513006875 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 640513006876 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 640513006877 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 640513006878 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640513006879 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 640513006880 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 640513006881 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 640513006882 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 640513006883 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 640513006884 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 640513006885 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 640513006886 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 640513006887 PAAR motif; Region: PAAR_motif; pfam05488 640513006888 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 640513006889 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 640513006890 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 640513006891 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 640513006892 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 640513006893 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 640513006894 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 640513006895 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 640513006896 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 640513006897 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 640513006898 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 640513006899 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 640513006900 ImpA domain protein; Region: DUF3702; pfam12486 640513006901 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 640513006902 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 640513006903 Walker A/P-loop; other site 640513006904 ATP binding site [chemical binding]; other site 640513006905 Q-loop/lid; other site 640513006906 ABC transporter signature motif; other site 640513006907 Walker B; other site 640513006908 D-loop; other site 640513006909 H-loop/switch region; other site 640513006910 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 640513006911 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 640513006912 ABC-ATPase subunit interface; other site 640513006913 dimer interface [polypeptide binding]; other site 640513006914 putative PBP binding regions; other site 640513006915 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 640513006916 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 640513006917 ABC-ATPase subunit interface; other site 640513006918 dimer interface [polypeptide binding]; other site 640513006919 putative PBP binding regions; other site 640513006920 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 640513006921 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 640513006922 siderophore binding site; other site 640513006923 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 640513006924 Secretin and TonB N terminus short domain; Region: STN; smart00965 640513006925 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 640513006926 N-terminal plug; other site 640513006927 ligand-binding site [chemical binding]; other site 640513006928 fec operon regulator FecR; Reviewed; Region: PRK09774 640513006929 FecR protein; Region: FecR; pfam04773 640513006930 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 640513006931 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640513006932 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 640513006933 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513006934 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513006935 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 640513006936 dimerization interface [polypeptide binding]; other site 640513006937 AzlC protein; Region: AzlC; cl00570 640513006938 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 640513006939 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640513006940 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 640513006941 putative Zn2+ binding site [ion binding]; other site 640513006942 putative DNA binding site [nucleotide binding]; other site 640513006943 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640513006944 Coenzyme A binding pocket [chemical binding]; other site 640513006945 RibD C-terminal domain; Region: RibD_C; cl17279 640513006946 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 640513006947 YebG protein; Region: YebG; pfam07130 640513006948 Predicted amidohydrolase [General function prediction only]; Region: COG0388 640513006949 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_7; cd07585 640513006950 putative active site [active] 640513006951 catalytic triad [active] 640513006952 putative dimer interface [polypeptide binding]; other site 640513006953 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513006954 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513006955 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 640513006956 dimerization interface [polypeptide binding]; other site 640513006957 substrate binding pocket [chemical binding]; other site 640513006958 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 640513006959 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513006960 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640513006961 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640513006962 HlyD family secretion protein; Region: HlyD_3; pfam13437 640513006963 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640513006964 Predicted transcriptional regulator [Transcription]; Region: COG1959 640513006965 Transcriptional regulator; Region: Rrf2; pfam02082 640513006966 Transcriptional regulator; Region: Rrf2; cl17282 640513006967 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 640513006968 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 640513006969 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 640513006970 active site 640513006971 motif I; other site 640513006972 motif II; other site 640513006973 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 640513006974 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640513006975 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 640513006976 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640513006977 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640513006978 active site 640513006979 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 640513006980 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 640513006981 [4Fe-4S] binding site [ion binding]; other site 640513006982 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 640513006983 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 640513006984 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 640513006985 molybdopterin cofactor binding site; other site 640513006986 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 640513006987 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 640513006988 formate dehydrogenase-N subunit gamma; Provisional; Region: PRK10179 640513006989 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 640513006990 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 640513006991 active site 640513006992 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 640513006993 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 640513006994 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640513006995 Coenzyme A binding pocket [chemical binding]; other site 640513006996 Cupin domain; Region: Cupin_2; cl17218 640513006997 Helix-turn-helix domain; Region: HTH_18; pfam12833 640513006998 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513006999 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 640513007000 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 640513007001 active site 640513007002 motif I; other site 640513007003 motif II; other site 640513007004 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 640513007005 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 640513007006 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640513007007 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 640513007008 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640513007009 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 640513007010 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 640513007011 Sulfate transporter family; Region: Sulfate_transp; pfam00916 640513007012 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 640513007013 conjugal transfer protein TrbH; Provisional; Region: PRK13883 640513007014 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 640513007015 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 640513007016 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640513007017 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 640513007018 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 640513007019 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 640513007020 Walker A/P-loop; other site 640513007021 ATP binding site [chemical binding]; other site 640513007022 Q-loop/lid; other site 640513007023 ABC transporter signature motif; other site 640513007024 Walker B; other site 640513007025 D-loop; other site 640513007026 H-loop/switch region; other site 640513007027 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 640513007028 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 640513007029 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 640513007030 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 640513007031 urea carboxylase; Region: urea_carbox; TIGR02712 640513007032 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640513007033 ATP-grasp domain; Region: ATP-grasp_4; cl17255 640513007034 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 640513007035 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 640513007036 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 640513007037 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 640513007038 carboxyltransferase (CT) interaction site; other site 640513007039 biotinylation site [posttranslational modification]; other site 640513007040 allophanate hydrolase; Provisional; Region: PRK08186 640513007041 Amidase; Region: Amidase; cl11426 640513007042 twin-argninine leader-binding protein DmsD; Provisional; Region: PRK11621 640513007043 DMSO reductase anchor subunit [General function prediction only]; Region: DmsC; COG3302 640513007044 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 640513007045 4Fe-4S binding domain; Region: Fer4; pfam00037 640513007046 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 640513007047 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 640513007048 putative [Fe4-S4] binding site [ion binding]; other site 640513007049 putative molybdopterin cofactor binding site [chemical binding]; other site 640513007050 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 640513007051 putative molybdopterin cofactor binding site; other site 640513007052 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 640513007053 Uncharacterized protein family (UPF0257); Region: UPF0257; pfam06788 640513007054 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 640513007055 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640513007056 Coenzyme A binding pocket [chemical binding]; other site 640513007057 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 640513007058 hypothetical protein; Provisional; Region: PRK13659 640513007059 hypothetical protein; Provisional; Region: PRK02237 640513007060 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 640513007061 The starvation sensing protein RpsA from E.coli and its homologs are lactonizing enzymes whose putative targets are homoserine lactone (HSL)-derivative. They are part of the mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of...; Region: rpsA; cd03322 640513007062 putative active site pocket [active] 640513007063 putative metal binding site [ion binding]; other site 640513007064 putative oxidoreductase; Provisional; Region: PRK10083 640513007065 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 640513007066 putative NAD(P) binding site [chemical binding]; other site 640513007067 catalytic Zn binding site [ion binding]; other site 640513007068 structural Zn binding site [ion binding]; other site 640513007069 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 640513007070 metabolite-proton symporter; Region: 2A0106; TIGR00883 640513007071 putative substrate translocation pore; other site 640513007072 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 640513007073 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 640513007074 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 640513007075 YdfZ protein; Region: YdfZ; pfam14001 640513007076 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 640513007077 Ligand Binding Site [chemical binding]; other site 640513007078 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640513007079 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640513007080 DNA-binding site [nucleotide binding]; DNA binding site 640513007081 FCD domain; Region: FCD; pfam07729 640513007082 malonic semialdehyde reductase; Provisional; Region: PRK10538 640513007083 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 640513007084 putative NAD(P) binding site [chemical binding]; other site 640513007085 homodimer interface [polypeptide binding]; other site 640513007086 homotetramer interface [polypeptide binding]; other site 640513007087 active site 640513007088 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 640513007089 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 640513007090 active site 640513007091 Zn binding site [ion binding]; other site 640513007092 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 640513007093 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 640513007094 putative ligand binding site [chemical binding]; other site 640513007095 putative NAD binding site [chemical binding]; other site 640513007096 catalytic site [active] 640513007097 hypothetical protein; Provisional; Region: PRK10695 640513007098 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 640513007099 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3784 640513007100 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 640513007101 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513007102 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 640513007103 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640513007104 NAD(P) binding site [chemical binding]; other site 640513007105 catalytic residues [active] 640513007106 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640513007107 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640513007108 metal binding site [ion binding]; metal-binding site 640513007109 active site 640513007110 I-site; other site 640513007111 tyramine oxidase; Provisional; Region: tynA; PRK14696 640513007112 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 640513007113 Copper amine oxidase, N2 domain; Region: Cu_amine_oxidN2; pfam02727 640513007114 Copper amine oxidase, N3 domain; Region: Cu_amine_oxidN3; pfam02728 640513007115 Copper amine oxidase, enzyme domain; Region: Cu_amine_oxid; pfam01179 640513007116 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 640513007117 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 640513007118 substrate binding site [chemical binding]; other site 640513007119 dimer interface [polypeptide binding]; other site 640513007120 NADP binding site [chemical binding]; other site 640513007121 catalytic residues [active] 640513007122 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 640513007123 substrate binding site [chemical binding]; other site 640513007124 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 640513007125 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 640513007126 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 640513007127 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 640513007128 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 640513007129 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 640513007130 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 640513007131 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 640513007132 FAD binding pocket [chemical binding]; other site 640513007133 FAD binding motif [chemical binding]; other site 640513007134 phosphate binding motif [ion binding]; other site 640513007135 beta-alpha-beta structure motif; other site 640513007136 NAD(p) ribose binding residues [chemical binding]; other site 640513007137 NAD binding pocket [chemical binding]; other site 640513007138 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 640513007139 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 640513007140 catalytic loop [active] 640513007141 iron binding site [ion binding]; other site 640513007142 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 640513007143 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 640513007144 substrate binding site [chemical binding]; other site 640513007145 oxyanion hole (OAH) forming residues; other site 640513007146 trimer interface [polypeptide binding]; other site 640513007147 enoyl-CoA hydratase; Provisional; Region: PRK08140 640513007148 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 640513007149 substrate binding site [chemical binding]; other site 640513007150 oxyanion hole (OAH) forming residues; other site 640513007151 trimer interface [polypeptide binding]; other site 640513007152 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 640513007153 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 640513007154 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640513007155 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640513007156 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 640513007157 CoenzymeA binding site [chemical binding]; other site 640513007158 subunit interaction site [polypeptide binding]; other site 640513007159 PHB binding site; other site 640513007160 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 640513007161 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 640513007162 dimer interface [polypeptide binding]; other site 640513007163 active site 640513007164 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 640513007165 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 640513007166 active site 640513007167 AMP binding site [chemical binding]; other site 640513007168 homodimer interface [polypeptide binding]; other site 640513007169 acyl-activating enzyme (AAE) consensus motif; other site 640513007170 CoA binding site [chemical binding]; other site 640513007171 PaaX-like protein; Region: PaaX; pfam07848 640513007172 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 640513007173 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 640513007174 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 640513007175 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 640513007176 putative trimer interface [polypeptide binding]; other site 640513007177 putative metal binding site [ion binding]; other site 640513007178 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 640513007179 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 640513007180 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 640513007181 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640513007182 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 640513007183 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640513007184 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640513007185 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 640513007186 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 640513007187 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640513007188 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 640513007189 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 640513007190 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640513007191 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640513007192 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 640513007193 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640513007194 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 640513007195 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640513007196 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 640513007197 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 640513007198 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640513007199 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 640513007200 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640513007201 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 640513007202 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640513007203 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 640513007204 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640513007205 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 640513007206 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640513007207 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 640513007208 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640513007209 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640513007210 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 640513007211 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640513007212 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 640513007213 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 640513007214 Family description; Region: VCBS; pfam13517 640513007215 Family description; Region: VCBS; pfam13517 640513007216 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 640513007217 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 640513007218 putative active site [active] 640513007219 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640513007220 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513007221 Walker A/P-loop; other site 640513007222 ATP binding site [chemical binding]; other site 640513007223 Q-loop/lid; other site 640513007224 ABC transporter signature motif; other site 640513007225 Walker B; other site 640513007226 D-loop; other site 640513007227 H-loop/switch region; other site 640513007228 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 640513007229 HlyD family secretion protein; Region: HlyD_3; pfam13437 640513007230 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; cl17315 640513007231 DNA binding residues [nucleotide binding] 640513007232 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; cd01948 640513007233 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 640513007234 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 640513007235 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 640513007236 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640513007237 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 640513007238 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 640513007239 active site 640513007240 P-loop; other site 640513007241 phosphorylation site [posttranslational modification] 640513007242 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 640513007243 catalytic residues [active] 640513007244 dimer interface [polypeptide binding]; other site 640513007245 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513007246 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513007247 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 640513007248 dimerization interface [polypeptide binding]; other site 640513007249 glutathionine S-transferase; Provisional; Region: PRK10542 640513007250 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 640513007251 C-terminal domain interface [polypeptide binding]; other site 640513007252 GSH binding site (G-site) [chemical binding]; other site 640513007253 dimer interface [polypeptide binding]; other site 640513007254 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 640513007255 dimer interface [polypeptide binding]; other site 640513007256 N-terminal domain interface [polypeptide binding]; other site 640513007257 substrate binding pocket (H-site) [chemical binding]; other site 640513007258 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 640513007259 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640513007260 Coenzyme A binding pocket [chemical binding]; other site 640513007261 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 640513007262 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513007263 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 640513007264 dimerization interface [polypeptide binding]; other site 640513007265 TolA C-terminal; Region: TolA; pfam06519 640513007266 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 640513007267 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640513007268 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640513007269 metal binding site [ion binding]; metal-binding site 640513007270 active site 640513007271 I-site; other site 640513007272 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; cd01948 640513007273 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 640513007274 Protein of unknown function (DUF796); Region: DUF796; cl01226 640513007275 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 640513007276 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 640513007277 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640513007278 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640513007279 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 640513007280 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 640513007281 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 640513007282 active site 640513007283 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 640513007284 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 640513007285 Chain length determinant protein; Region: Wzz; pfam02706 640513007286 chain length determinant protein EpsF; Region: EpsF; TIGR03017 640513007287 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 640513007288 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 640513007289 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 640513007290 SLBB domain; Region: SLBB; pfam10531 640513007291 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 640513007292 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 640513007293 Bacterial sugar transferase; Region: Bac_transf; pfam02397 640513007294 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 640513007295 active site 640513007296 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 640513007297 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 640513007298 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 640513007299 active site 640513007300 azoreductase; Reviewed; Region: PRK00170 640513007301 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640513007302 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 640513007303 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 640513007304 ATP binding site [chemical binding]; other site 640513007305 putative Mg++ binding site [ion binding]; other site 640513007306 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 640513007307 nucleotide binding region [chemical binding]; other site 640513007308 ATP-binding site [chemical binding]; other site 640513007309 Helicase associated domain (HA2); Region: HA2; pfam04408 640513007310 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 640513007311 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 640513007312 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 640513007313 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 640513007314 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 640513007315 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 640513007316 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640513007317 HlyD family secretion protein; Region: HlyD_3; pfam13437 640513007318 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 640513007319 putative substrate translocation pore; other site 640513007320 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640513007321 metabolite-proton symporter; Region: 2A0106; TIGR00883 640513007322 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 640513007323 putative substrate translocation pore; other site 640513007324 Uncharacterized conserved protein [Function unknown]; Region: COG1434 640513007325 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 640513007326 putative active site [active] 640513007327 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 640513007328 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 640513007329 NAD binding site [chemical binding]; other site 640513007330 catalytic residues [active] 640513007331 substrate binding site [chemical binding]; other site 640513007332 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 640513007333 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 640513007334 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 640513007335 cytochrome b561; Provisional; Region: PRK11513 640513007336 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 640513007337 metabolite-proton symporter; Region: 2A0106; TIGR00883 640513007338 putative substrate translocation pore; other site 640513007339 putative oxidoreductase; Provisional; Region: PRK11579 640513007340 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640513007341 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 640513007342 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640513007343 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 640513007344 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640513007345 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 640513007346 putative metal binding site [ion binding]; other site 640513007347 putative homodimer interface [polypeptide binding]; other site 640513007348 putative homotetramer interface [polypeptide binding]; other site 640513007349 putative homodimer-homodimer interface [polypeptide binding]; other site 640513007350 putative allosteric switch controlling residues; other site 640513007351 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 640513007352 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 640513007353 substrate binding site [chemical binding]; other site 640513007354 catalytic Zn binding site [ion binding]; other site 640513007355 NAD binding site [chemical binding]; other site 640513007356 structural Zn binding site [ion binding]; other site 640513007357 dimer interface [polypeptide binding]; other site 640513007358 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 640513007359 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 640513007360 dimer interface [polypeptide binding]; other site 640513007361 ligand binding site [chemical binding]; other site 640513007362 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 640513007363 dimerization interface [polypeptide binding]; other site 640513007364 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640513007365 dimer interface [polypeptide binding]; other site 640513007366 putative CheW interface [polypeptide binding]; other site 640513007367 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 640513007368 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 640513007369 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 640513007370 Trp docking motif [polypeptide binding]; other site 640513007371 putative active site [active] 640513007372 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 640513007373 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513007374 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 640513007375 dimerization interface [polypeptide binding]; other site 640513007376 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 640513007377 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 640513007378 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 640513007379 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 640513007380 substrate binding pocket [chemical binding]; other site 640513007381 catalytic triad [active] 640513007382 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640513007383 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513007384 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 640513007385 dimerization interface [polypeptide binding]; other site 640513007386 putative aminotransferase; Provisional; Region: PRK12414 640513007387 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 640513007388 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513007389 homodimer interface [polypeptide binding]; other site 640513007390 catalytic residue [active] 640513007391 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 640513007392 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 640513007393 substrate binding pocket [chemical binding]; other site 640513007394 membrane-bound complex binding site; other site 640513007395 hinge residues; other site 640513007396 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 640513007397 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 640513007398 Uncharacterized conserved protein [Function unknown]; Region: COG4127 640513007399 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; cl17189 640513007400 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 640513007401 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 640513007402 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640513007403 Coenzyme A binding pocket [chemical binding]; other site 640513007404 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 640513007405 putative CoA binding site [chemical binding]; other site 640513007406 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cd00208 640513007407 putative trimer interface [polypeptide binding]; other site 640513007408 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 640513007409 putative trimer interface [polypeptide binding]; other site 640513007410 putative CoA binding site [chemical binding]; other site 640513007411 putative CoA binding site [chemical binding]; other site 640513007412 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 640513007413 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 640513007414 gating phenylalanine in ion channel; other site 640513007415 tellurite resistance protein TehB; Provisional; Region: PRK11207 640513007416 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 640513007417 S-adenosylmethionine binding site [chemical binding]; other site 640513007418 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 640513007419 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 640513007420 metal binding site [ion binding]; metal-binding site 640513007421 dimer interface [polypeptide binding]; other site 640513007422 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640513007423 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 640513007424 peptide binding site [polypeptide binding]; other site 640513007425 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 640513007426 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 640513007427 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 640513007428 EamA-like transporter family; Region: EamA; pfam00892 640513007429 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 640513007430 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513007431 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 640513007432 benzoate transporter; Region: benE; TIGR00843 640513007433 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 640513007434 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 640513007435 non-specific DNA binding site [nucleotide binding]; other site 640513007436 salt bridge; other site 640513007437 sequence-specific DNA binding site [nucleotide binding]; other site 640513007438 Cupin domain; Region: Cupin_2; pfam07883 640513007439 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 640513007440 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 640513007441 Peptidase family U32; Region: Peptidase_U32; pfam01136 640513007442 Collagenase; Region: DUF3656; pfam12392 640513007443 Protein of unknown function (DUF2554); Region: DUF2554; pfam10829 640513007444 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 640513007445 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640513007446 conserved cys residue [active] 640513007447 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513007448 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513007449 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 640513007450 active site residue [active] 640513007451 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 640513007452 substrate binding site [chemical binding]; other site 640513007453 THF binding site; other site 640513007454 zinc-binding site [ion binding]; other site 640513007455 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 640513007456 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 640513007457 putative ligand binding site [chemical binding]; other site 640513007458 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 640513007459 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640513007460 TM-ABC transporter signature motif; other site 640513007461 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640513007462 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 640513007463 TM-ABC transporter signature motif; other site 640513007464 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 640513007465 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640513007466 Walker A/P-loop; other site 640513007467 ATP binding site [chemical binding]; other site 640513007468 Q-loop/lid; other site 640513007469 ABC transporter signature motif; other site 640513007470 Walker B; other site 640513007471 D-loop; other site 640513007472 H-loop/switch region; other site 640513007473 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 640513007474 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640513007475 Walker A/P-loop; other site 640513007476 ATP binding site [chemical binding]; other site 640513007477 Q-loop/lid; other site 640513007478 ABC transporter signature motif; other site 640513007479 Walker B; other site 640513007480 D-loop; other site 640513007481 H-loop/switch region; other site 640513007482 zinc/cadmium-binding protein; Provisional; Region: PRK10306 640513007483 putative transporter; Provisional; Region: PRK10054 640513007484 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 640513007485 putative substrate translocation pore; other site 640513007486 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 640513007487 EamA-like transporter family; Region: EamA; pfam00892 640513007488 EamA-like transporter family; Region: EamA; pfam00892 640513007489 hypothetical protein; Provisional; Region: PRK10106 640513007490 DNA-binding transcriptional activator MarA; Provisional; Region: PRK11511 640513007491 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513007492 DNA-binding transcriptional repressor MarR; Provisional; Region: PRK11512 640513007493 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640513007494 inner membrane protein; Provisional; Region: PRK10995 640513007495 putative arabinose transporter; Provisional; Region: PRK03545 640513007496 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 640513007497 putative substrate translocation pore; other site 640513007498 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 640513007499 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 640513007500 short chain dehydrogenase; Provisional; Region: PRK07577 640513007501 classical (c) SDRs; Region: SDR_c; cd05233 640513007502 NAD(P) binding site [chemical binding]; other site 640513007503 active site 640513007504 Domain of unknown function (DUF386); Region: DUF386; cl01047 640513007505 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 640513007506 BNR repeat-like domain; Region: BNR_2; pfam13088 640513007507 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 640513007508 putative transporter; Provisional; Region: PRK10484 640513007509 Na binding site [ion binding]; other site 640513007510 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640513007511 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640513007512 inhibitor site; inhibition site 640513007513 active site 640513007514 dimer interface [polypeptide binding]; other site 640513007515 catalytic residue [active] 640513007516 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 640513007517 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 640513007518 putative active site [active] 640513007519 metal binding site [ion binding]; metal-binding site 640513007520 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 640513007521 4-hydroxythreonine-4-phosphate dehydrogenase 2; Provisional; Region: pdxA; PRK03371 640513007522 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 640513007523 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640513007524 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 640513007525 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640513007526 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 640513007527 tetramer (dimer of dimers) interface [polypeptide binding]; other site 640513007528 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 640513007529 NAD binding site [chemical binding]; other site 640513007530 dimer interface [polypeptide binding]; other site 640513007531 substrate binding site [chemical binding]; other site 640513007532 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 640513007533 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 640513007534 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513007535 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 640513007536 putative dimerization interface [polypeptide binding]; other site 640513007537 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 640513007538 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 640513007539 NAD(P) binding site [chemical binding]; other site 640513007540 catalytic residues [active] 640513007541 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 640513007542 dimer interface [polypeptide binding]; other site 640513007543 ligand binding site [chemical binding]; other site 640513007544 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 640513007545 dimerization interface [polypeptide binding]; other site 640513007546 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640513007547 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640513007548 dimer interface [polypeptide binding]; other site 640513007549 putative CheW interface [polypeptide binding]; other site 640513007550 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 640513007551 glutaminase; Provisional; Region: PRK00971 640513007552 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 640513007553 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640513007554 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640513007555 metal binding site [ion binding]; metal-binding site 640513007556 active site 640513007557 I-site; other site 640513007558 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 640513007559 MASE2 domain; Region: MASE2; pfam05230 640513007560 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640513007561 metal binding site [ion binding]; metal-binding site 640513007562 active site 640513007563 I-site; other site 640513007564 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 640513007565 GAF domain; Region: GAF; pfam01590 640513007566 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640513007567 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640513007568 metal binding site [ion binding]; metal-binding site 640513007569 active site 640513007570 I-site; other site 640513007571 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640513007572 Coenzyme A binding pocket [chemical binding]; other site 640513007573 altronate oxidoreductase; Provisional; Region: PRK03643 640513007574 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 640513007575 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 640513007576 Predicted membrane protein [Function unknown]; Region: COG3781 640513007577 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 640513007578 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 640513007579 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 640513007580 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640513007581 Coenzyme A binding pocket [chemical binding]; other site 640513007582 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 640513007583 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640513007584 Coenzyme A binding pocket [chemical binding]; other site 640513007585 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 640513007586 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640513007587 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 640513007588 active site 640513007589 phosphorylation site [posttranslational modification] 640513007590 intermolecular recognition site; other site 640513007591 dimerization interface [polypeptide binding]; other site 640513007592 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 640513007593 DNA binding site [nucleotide binding] 640513007594 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 640513007595 dimer interface [polypeptide binding]; other site 640513007596 phosphorylation site [posttranslational modification] 640513007597 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 640513007598 ATP binding site [chemical binding]; other site 640513007599 Mg2+ binding site [ion binding]; other site 640513007600 G-X-G motif; other site 640513007601 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 640513007602 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 640513007603 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 640513007604 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640513007605 catalytic residues [active] 640513007606 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640513007607 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 640513007608 trimer interface [polypeptide binding]; other site 640513007609 eyelet of channel; other site 640513007610 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 640513007611 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 640513007612 S-adenosylmethionine binding site [chemical binding]; other site 640513007613 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 640513007614 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 640513007615 dimer interface [polypeptide binding]; other site 640513007616 ADP-ribose binding site [chemical binding]; other site 640513007617 active site 640513007618 nudix motif; other site 640513007619 metal binding site [ion binding]; metal-binding site 640513007620 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640513007621 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640513007622 DNA-binding site [nucleotide binding]; DNA binding site 640513007623 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640513007624 AAA domain; Region: AAA_33; pfam13671 640513007625 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 640513007626 active site 640513007627 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 640513007628 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 640513007629 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640513007630 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 640513007631 non-specific DNA binding site [nucleotide binding]; other site 640513007632 salt bridge; other site 640513007633 sequence-specific DNA binding site [nucleotide binding]; other site 640513007634 HipA N-terminal domain; Region: Couple_hipA; pfam13657 640513007635 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 640513007636 HipA-like N-terminal domain; Region: HipA_N; pfam07805 640513007637 HipA-like C-terminal domain; Region: HipA_C; pfam07804 640513007638 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 640513007639 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 640513007640 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 640513007641 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 640513007642 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 640513007643 dimerization domain [polypeptide binding]; other site 640513007644 dimer interface [polypeptide binding]; other site 640513007645 catalytic residues [active] 640513007646 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 640513007647 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 640513007648 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640513007649 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 640513007650 DNA binding residues [nucleotide binding] 640513007651 HAMP domain; Region: HAMP; pfam00672 640513007652 dimerization interface [polypeptide binding]; other site 640513007653 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640513007654 dimer interface [polypeptide binding]; other site 640513007655 putative CheW interface [polypeptide binding]; other site 640513007656 Sensors of blue-light using FAD; Region: BLUF; pfam04940 640513007657 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; cd01948 640513007658 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 640513007659 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640513007660 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640513007661 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640513007662 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 640513007663 D-alanyl-D-alanine dipeptidase; Provisional; Region: PRK10178 640513007664 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640513007665 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 640513007666 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640513007667 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 640513007668 dimer interface [polypeptide binding]; other site 640513007669 conserved gate region; other site 640513007670 putative PBP binding loops; other site 640513007671 ABC-ATPase subunit interface; other site 640513007672 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 640513007673 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 640513007674 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 640513007675 dimer interface [polypeptide binding]; other site 640513007676 conserved gate region; other site 640513007677 putative PBP binding loops; other site 640513007678 ABC-ATPase subunit interface; other site 640513007679 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 640513007680 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640513007681 Walker A/P-loop; other site 640513007682 ATP binding site [chemical binding]; other site 640513007683 Q-loop/lid; other site 640513007684 ABC transporter signature motif; other site 640513007685 Walker B; other site 640513007686 D-loop; other site 640513007687 H-loop/switch region; other site 640513007688 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640513007689 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 640513007690 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640513007691 Walker A/P-loop; other site 640513007692 ATP binding site [chemical binding]; other site 640513007693 Q-loop/lid; other site 640513007694 ABC transporter signature motif; other site 640513007695 Walker B; other site 640513007696 D-loop; other site 640513007697 H-loop/switch region; other site 640513007698 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640513007699 poly(beta-D-mannuronate) lyase; Provisional; Region: algL; PRK00325 640513007700 active site 640513007701 short chain dehydrogenase; Provisional; Region: PRK06500 640513007702 classical (c) SDRs; Region: SDR_c; cd05233 640513007703 NAD(P) binding site [chemical binding]; other site 640513007704 active site 640513007705 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513007706 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513007707 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 640513007708 putative effector binding pocket; other site 640513007709 putative dimerization interface [polypeptide binding]; other site 640513007710 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 640513007711 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 640513007712 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 640513007713 putative NAD(P) binding site [chemical binding]; other site 640513007714 putative substrate binding site [chemical binding]; other site 640513007715 catalytic Zn binding site [ion binding]; other site 640513007716 structural Zn binding site [ion binding]; other site 640513007717 dimer interface [polypeptide binding]; other site 640513007718 transcriptional regulator; Provisional; Region: PRK10632 640513007719 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513007720 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 640513007721 putative effector binding pocket; other site 640513007722 dimerization interface [polypeptide binding]; other site 640513007723 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 640513007724 30S ribosomal protein subunit S22 family; Region: Ribosomal_S22; cl11579 640513007725 malate dehydrogenase; Provisional; Region: PRK13529 640513007726 Malic enzyme, N-terminal domain; Region: malic; pfam00390 640513007727 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 640513007728 NAD(P) binding site [chemical binding]; other site 640513007729 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 640513007730 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640513007731 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640513007732 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 640513007733 dimer interface [polypeptide binding]; other site 640513007734 substrate binding site [chemical binding]; other site 640513007735 metal binding sites [ion binding]; metal-binding site 640513007736 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 640513007737 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 640513007738 NAD binding site [chemical binding]; other site 640513007739 substrate binding site [chemical binding]; other site 640513007740 catalytic Zn binding site [ion binding]; other site 640513007741 tetramer interface [polypeptide binding]; other site 640513007742 structural Zn binding site [ion binding]; other site 640513007743 Predicted transcriptional regulator [Transcription]; Region: COG1959 640513007744 Transcriptional regulator; Region: Rrf2; pfam02082 640513007745 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 640513007746 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640513007747 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640513007748 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640513007749 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_15; cd08492 640513007750 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640513007751 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 640513007752 dimer interface [polypeptide binding]; other site 640513007753 conserved gate region; other site 640513007754 putative PBP binding loops; other site 640513007755 ABC-ATPase subunit interface; other site 640513007756 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 640513007757 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 640513007758 dimer interface [polypeptide binding]; other site 640513007759 ABC-ATPase subunit interface; other site 640513007760 putative PBP binding loops; other site 640513007761 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 640513007762 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640513007763 Walker A/P-loop; other site 640513007764 ATP binding site [chemical binding]; other site 640513007765 Q-loop/lid; other site 640513007766 ABC transporter signature motif; other site 640513007767 Walker B; other site 640513007768 D-loop; other site 640513007769 H-loop/switch region; other site 640513007770 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640513007771 Walker A/P-loop; other site 640513007772 ATP binding site [chemical binding]; other site 640513007773 Q-loop/lid; other site 640513007774 ABC transporter signature motif; other site 640513007775 Walker B; other site 640513007776 D-loop; other site 640513007777 H-loop/switch region; other site 640513007778 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640513007779 putative FMN-dependent luciferase-like monooxygenase, KPN_01858 family; Region: LLM_KPN_01858; TIGR04027 640513007780 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 640513007781 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 640513007782 alkylhydroperoxidase domain protein, Avi_7169 family; Region: perox_Avi_7169; TIGR04030 640513007783 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 640513007784 MFS transport protein AraJ; Provisional; Region: PRK10091 640513007785 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 640513007786 putative substrate translocation pore; other site 640513007787 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 640513007788 Nuclear pore complex subunit [Intracellular trafficking and secretion]; Region: NUP170; COG5308 640513007789 CcdB protein; Region: CcdB; cl03380 640513007790 formate dehydrogenase-N subunit gamma; Provisional; Region: PRK10179 640513007791 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 640513007792 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 640513007793 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 640513007794 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 640513007795 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 640513007796 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 640513007797 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 640513007798 molybdopterin cofactor binding site; other site 640513007799 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 640513007800 aromatic amino acid exporter; Provisional; Region: PRK11689 640513007801 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640513007802 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 640513007803 trimer interface [polypeptide binding]; other site 640513007804 eyelet of channel; other site 640513007805 Uncharacterized conserved protein [Function unknown]; Region: COG3791 640513007806 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640513007807 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 640513007808 putative DNA binding site [nucleotide binding]; other site 640513007809 putative Zn2+ binding site [ion binding]; other site 640513007810 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 640513007811 dimerization interface [polypeptide binding]; other site 640513007812 substrate binding pocket [chemical binding]; other site 640513007813 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 640513007814 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640513007815 TM-ABC transporter signature motif; other site 640513007816 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 640513007817 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 640513007818 TM-ABC transporter signature motif; other site 640513007819 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 640513007820 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640513007821 Walker A/P-loop; other site 640513007822 ATP binding site [chemical binding]; other site 640513007823 Q-loop/lid; other site 640513007824 ABC transporter signature motif; other site 640513007825 Walker B; other site 640513007826 D-loop; other site 640513007827 H-loop/switch region; other site 640513007828 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640513007829 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640513007830 Walker A/P-loop; other site 640513007831 ATP binding site [chemical binding]; other site 640513007832 Q-loop/lid; other site 640513007833 ABC transporter signature motif; other site 640513007834 Walker B; other site 640513007835 D-loop; other site 640513007836 H-loop/switch region; other site 640513007837 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640513007838 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 640513007839 dimerization interface [polypeptide binding]; other site 640513007840 ligand binding site [chemical binding]; other site 640513007841 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 640513007842 allantoate amidohydrolase; Reviewed; Region: PRK12893 640513007843 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 640513007844 active site 640513007845 metal binding site [ion binding]; metal-binding site 640513007846 dimer interface [polypeptide binding]; other site 640513007847 potassium uptake protein; Region: kup; TIGR00794 640513007848 K+ potassium transporter; Region: K_trans; pfam02705 640513007849 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 640513007850 TetR family transcriptional regulator; Provisional; Region: PRK14996 640513007851 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640513007852 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 640513007853 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 640513007854 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 640513007855 [4Fe-4S] binding site [ion binding]; other site 640513007856 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 640513007857 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 640513007858 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 640513007859 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 640513007860 molybdopterin cofactor binding site; other site 640513007861 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 640513007862 nitrate reductase 2 subunit delta; Provisional; Region: PRK15054 640513007863 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 640513007864 N-hydroxyarylamine O-acetyltransferase; Provisional; Region: PRK15047 640513007865 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 640513007866 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 640513007867 dimer interface [polypeptide binding]; other site 640513007868 conserved gate region; other site 640513007869 putative PBP binding loops; other site 640513007870 ABC-ATPase subunit interface; other site 640513007871 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 640513007872 dimer interface [polypeptide binding]; other site 640513007873 conserved gate region; other site 640513007874 putative PBP binding loops; other site 640513007875 ABC-ATPase subunit interface; other site 640513007876 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640513007877 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 640513007878 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 640513007879 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 640513007880 Walker A/P-loop; other site 640513007881 ATP binding site [chemical binding]; other site 640513007882 Q-loop/lid; other site 640513007883 ABC transporter signature motif; other site 640513007884 Walker B; other site 640513007885 D-loop; other site 640513007886 H-loop/switch region; other site 640513007887 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 640513007888 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 640513007889 elongation factor G; Reviewed; Region: PRK00007 640513007890 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 640513007891 G1 box; other site 640513007892 putative GEF interaction site [polypeptide binding]; other site 640513007893 GTP/Mg2+ binding site [chemical binding]; other site 640513007894 Switch I region; other site 640513007895 G2 box; other site 640513007896 G3 box; other site 640513007897 Switch II region; other site 640513007898 G4 box; other site 640513007899 G5 box; other site 640513007900 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 640513007901 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 640513007902 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 640513007903 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 640513007904 dimerization interface [polypeptide binding]; other site 640513007905 putative DNA binding site [nucleotide binding]; other site 640513007906 putative Zn2+ binding site [ion binding]; other site 640513007907 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 640513007908 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 640513007909 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 640513007910 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 640513007911 non-specific DNA binding site [nucleotide binding]; other site 640513007912 salt bridge; other site 640513007913 sequence-specific DNA binding site [nucleotide binding]; other site 640513007914 Cupin domain; Region: Cupin_2; pfam07883 640513007915 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 640513007916 B3/4 domain; Region: B3_4; pfam03483 640513007917 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 640513007918 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 640513007919 inhibitor site; inhibition site 640513007920 active site 640513007921 dimer interface [polypeptide binding]; other site 640513007922 catalytic residue [active] 640513007923 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 640513007924 CCC1-related family of proteins; Region: CCC1_like; cl00278 640513007925 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 640513007926 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 640513007927 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640513007928 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 640513007929 putative substrate binding site [chemical binding]; other site 640513007930 putative ATP binding site [chemical binding]; other site 640513007931 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 640513007932 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 640513007933 trimer interface; other site 640513007934 sugar binding site [chemical binding]; other site 640513007935 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 640513007936 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 640513007937 active site turn [active] 640513007938 phosphorylation site [posttranslational modification] 640513007939 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 640513007940 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 640513007941 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 640513007942 substrate binding [chemical binding]; other site 640513007943 active site 640513007944 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 640513007945 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 640513007946 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640513007947 DNA binding site [nucleotide binding] 640513007948 domain linker motif; other site 640513007949 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 640513007950 dimerization interface [polypeptide binding]; other site 640513007951 ligand binding site [chemical binding]; other site 640513007952 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 640513007953 Predicted permeases [General function prediction only]; Region: COG0679 640513007954 malate dehydrogenase; Provisional; Region: PRK13529 640513007955 Malic enzyme, N-terminal domain; Region: malic; pfam00390 640513007956 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 640513007957 NAD(P) binding site [chemical binding]; other site 640513007958 4-oxalocrotonate tautomerase; Provisional; Region: PRK01271 640513007959 active site 1 [active] 640513007960 dimer interface [polypeptide binding]; other site 640513007961 hexamer interface [polypeptide binding]; other site 640513007962 active site 2 [active] 640513007963 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 640513007964 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 640513007965 C-terminal domain interface [polypeptide binding]; other site 640513007966 GSH binding site (G-site) [chemical binding]; other site 640513007967 dimer interface [polypeptide binding]; other site 640513007968 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 640513007969 dimer interface [polypeptide binding]; other site 640513007970 N-terminal domain interface [polypeptide binding]; other site 640513007971 substrate binding pocket (H-site) [chemical binding]; other site 640513007972 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 640513007973 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640513007974 substrate binding pocket [chemical binding]; other site 640513007975 membrane-bound complex binding site; other site 640513007976 hinge residues; other site 640513007977 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640513007978 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513007979 Walker A/P-loop; other site 640513007980 ATP binding site [chemical binding]; other site 640513007981 Q-loop/lid; other site 640513007982 ABC transporter signature motif; other site 640513007983 Walker B; other site 640513007984 D-loop; other site 640513007985 H-loop/switch region; other site 640513007986 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 640513007987 dimer interface [polypeptide binding]; other site 640513007988 conserved gate region; other site 640513007989 putative PBP binding loops; other site 640513007990 ABC-ATPase subunit interface; other site 640513007991 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640513007992 Coenzyme A binding pocket [chemical binding]; other site 640513007993 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 640513007994 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 640513007995 substrate binding pocket [chemical binding]; other site 640513007996 membrane-bound complex binding site; other site 640513007997 hinge residues; other site 640513007998 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 640513007999 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640513008000 active site 640513008001 non-prolyl cis peptide bond; other site 640513008002 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 640513008003 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 640513008004 metal binding site [ion binding]; metal-binding site 640513008005 dimer interface [polypeptide binding]; other site 640513008006 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 640513008007 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 640513008008 AAA domain; Region: AAA_17; pfam13207 640513008009 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 640513008010 PAS domain; Region: PAS_9; pfam13426 640513008011 putative active site [active] 640513008012 heme pocket [chemical binding]; other site 640513008013 HAMP domain; Region: HAMP; pfam00672 640513008014 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640513008015 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640513008016 dimer interface [polypeptide binding]; other site 640513008017 putative CheW interface [polypeptide binding]; other site 640513008018 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 640513008019 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513008020 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513008021 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 640513008022 putative effector binding pocket; other site 640513008023 putative dimerization interface [polypeptide binding]; other site 640513008024 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 640513008025 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640513008026 active site 640513008027 catalytic tetrad [active] 640513008028 L-asparagine permease; Provisional; Region: PRK15049 640513008029 Uncharacterized conserved protein [Function unknown]; Region: COG3391 640513008030 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 640513008031 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 640513008032 N-terminal plug; other site 640513008033 ligand-binding site [chemical binding]; other site 640513008034 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 640513008035 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 640513008036 dimerization interface [polypeptide binding]; other site 640513008037 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640513008038 dimer interface [polypeptide binding]; other site 640513008039 putative CheW interface [polypeptide binding]; other site 640513008040 colanic acid/biofilm transcriptional regulator; Provisional; Region: PRK11414 640513008041 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640513008042 DNA-binding site [nucleotide binding]; DNA binding site 640513008043 FCD domain; Region: FCD; pfam07729 640513008044 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 640513008045 Prostaglandin dehydrogenases; Region: PGDH; cd05288 640513008046 NAD(P) binding site [chemical binding]; other site 640513008047 substrate binding site [chemical binding]; other site 640513008048 dimer interface [polypeptide binding]; other site 640513008049 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640513008050 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 640513008051 sequence-specific DNA binding site [nucleotide binding]; other site 640513008052 salt bridge; other site 640513008053 Cupin domain; Region: Cupin_2; pfam07883 640513008054 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 640513008055 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640513008056 Coenzyme A binding pocket [chemical binding]; other site 640513008057 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 640513008058 Protein of unknown function (DUF2526); Region: DUF2526; pfam10735 640513008059 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640513008060 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 640513008061 peptide binding site [polypeptide binding]; other site 640513008062 Virulence factor SrfB; Region: SrfB; pfam07520 640513008063 Uncharacterized protein conserved in bacteria, putative virulence factor [Function unknown]; Region: SrfC; COG4458 640513008064 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640513008065 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 640513008066 Domain of unknown function (DUF1971); Region: DUF1971; cl17717 640513008067 Domain of unknown function (DUF1971); Region: DUF1971; cl17717 640513008068 Domain of unknown function (DUF1869); Region: DUF1869; pfam08956 640513008069 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 640513008070 Acyltransferase family; Region: Acyl_transf_3; pfam01757 640513008071 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 640513008072 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 640513008073 tetrameric interface [polypeptide binding]; other site 640513008074 NAD binding site [chemical binding]; other site 640513008075 catalytic residues [active] 640513008076 substrate binding site [chemical binding]; other site 640513008077 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 640513008078 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 640513008079 putative PBP binding loops; other site 640513008080 dimer interface [polypeptide binding]; other site 640513008081 ABC-ATPase subunit interface; other site 640513008082 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 640513008083 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 640513008084 dimer interface [polypeptide binding]; other site 640513008085 conserved gate region; other site 640513008086 putative PBP binding loops; other site 640513008087 ABC-ATPase subunit interface; other site 640513008088 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640513008089 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513008090 Walker A/P-loop; other site 640513008091 ATP binding site [chemical binding]; other site 640513008092 Q-loop/lid; other site 640513008093 ABC transporter signature motif; other site 640513008094 Walker B; other site 640513008095 D-loop; other site 640513008096 H-loop/switch region; other site 640513008097 TOBE domain; Region: TOBE_2; pfam08402 640513008098 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640513008099 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 640513008100 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 640513008101 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640513008102 DNA-binding site [nucleotide binding]; DNA binding site 640513008103 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 640513008104 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513008105 homodimer interface [polypeptide binding]; other site 640513008106 catalytic residue [active] 640513008107 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 640513008108 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 640513008109 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 640513008110 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 640513008111 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 640513008112 heat-inducible protein; Provisional; Region: PRK10449 640513008113 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 640513008114 Domain of unknown function (DUF333); Region: DUF333; pfam03891 640513008115 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 640513008116 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 640513008117 dimer interface [polypeptide binding]; other site 640513008118 PYR/PP interface [polypeptide binding]; other site 640513008119 TPP binding site [chemical binding]; other site 640513008120 substrate binding site [chemical binding]; other site 640513008121 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 640513008122 Domain of unknown function; Region: EKR; pfam10371 640513008123 4Fe-4S binding domain; Region: Fer4_6; pfam12837 640513008124 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 640513008125 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 640513008126 TPP-binding site [chemical binding]; other site 640513008127 dimer interface [polypeptide binding]; other site 640513008128 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640513008129 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 640513008130 trimer interface [polypeptide binding]; other site 640513008131 eyelet of channel; other site 640513008132 KTSC domain; Region: KTSC; pfam13619 640513008133 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 640513008134 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640513008135 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 640513008136 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 640513008137 Ligand Binding Site [chemical binding]; other site 640513008138 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 640513008139 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 640513008140 ATP binding site [chemical binding]; other site 640513008141 Mg++ binding site [ion binding]; other site 640513008142 motif III; other site 640513008143 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 640513008144 nucleotide binding region [chemical binding]; other site 640513008145 ATP-binding site [chemical binding]; other site 640513008146 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 640513008147 putative RNA binding site [nucleotide binding]; other site 640513008148 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 640513008149 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 640513008150 Cl binding site [ion binding]; other site 640513008151 oligomer interface [polypeptide binding]; other site 640513008152 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640513008153 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640513008154 metal binding site [ion binding]; metal-binding site 640513008155 active site 640513008156 I-site; other site 640513008157 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 640513008158 HAMP domain; Region: HAMP; pfam00672 640513008159 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640513008160 dimer interface [polypeptide binding]; other site 640513008161 putative CheW interface [polypeptide binding]; other site 640513008162 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 640513008163 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 640513008164 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640513008165 metal binding site [ion binding]; metal-binding site 640513008166 active site 640513008167 I-site; other site 640513008168 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; cd01948 640513008169 PAS domain S-box; Region: sensory_box; TIGR00229 640513008170 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 640513008171 putative active site [active] 640513008172 heme pocket [chemical binding]; other site 640513008173 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640513008174 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640513008175 metal binding site [ion binding]; metal-binding site 640513008176 active site 640513008177 I-site; other site 640513008178 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 640513008179 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 640513008180 peptide binding site [polypeptide binding]; other site 640513008181 murein peptide amidase A; Provisional; Region: PRK10602 640513008182 active site 640513008183 Zn binding site [ion binding]; other site 640513008184 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 640513008185 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 640513008186 active site 640513008187 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 640513008188 dimer interface [polypeptide binding]; other site 640513008189 catalytic triad [active] 640513008190 peroxidatic and resolving cysteines [active] 640513008191 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 640513008192 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 640513008193 putative aromatic amino acid binding site; other site 640513008194 PAS domain; Region: PAS; smart00091 640513008195 putative active site [active] 640513008196 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 640513008197 Walker A motif; other site 640513008198 ATP binding site [chemical binding]; other site 640513008199 Walker B motif; other site 640513008200 arginine finger; other site 640513008201 hypothetical protein; Provisional; Region: PRK05415 640513008202 Domain of unknown function (DUF697); Region: DUF697; cl12064 640513008203 Predicted ATPase [General function prediction only]; Region: COG3106 640513008204 peripheral inner membrane phage-shock protein; Provisional; Region: PRK10497 640513008205 DNA-binding transcriptional activator PspC; Provisional; Region: PRK10697 640513008206 phage shock protein C; Region: phageshock_pspC; TIGR02978 640513008207 phage shock protein B; Provisional; Region: pspB; PRK09458 640513008208 phage shock protein PspA; Provisional; Region: PRK10698 640513008209 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 640513008210 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 640513008211 Walker A motif; other site 640513008212 ATP binding site [chemical binding]; other site 640513008213 Walker B motif; other site 640513008214 arginine finger; other site 640513008215 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640513008216 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 640513008217 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 640513008218 peptide binding site [polypeptide binding]; other site 640513008219 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 640513008220 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 640513008221 dimer interface [polypeptide binding]; other site 640513008222 conserved gate region; other site 640513008223 putative PBP binding loops; other site 640513008224 ABC-ATPase subunit interface; other site 640513008225 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 640513008226 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 640513008227 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 640513008228 dimer interface [polypeptide binding]; other site 640513008229 conserved gate region; other site 640513008230 putative PBP binding loops; other site 640513008231 ABC-ATPase subunit interface; other site 640513008232 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 640513008233 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640513008234 Walker A/P-loop; other site 640513008235 ATP binding site [chemical binding]; other site 640513008236 Q-loop/lid; other site 640513008237 ABC transporter signature motif; other site 640513008238 Walker B; other site 640513008239 D-loop; other site 640513008240 H-loop/switch region; other site 640513008241 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640513008242 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 640513008243 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640513008244 Walker A/P-loop; other site 640513008245 ATP binding site [chemical binding]; other site 640513008246 Q-loop/lid; other site 640513008247 ABC transporter signature motif; other site 640513008248 Walker B; other site 640513008249 D-loop; other site 640513008250 H-loop/switch region; other site 640513008251 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07984 640513008252 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 640513008253 NAD binding site [chemical binding]; other site 640513008254 homotetramer interface [polypeptide binding]; other site 640513008255 homodimer interface [polypeptide binding]; other site 640513008256 substrate binding site [chemical binding]; other site 640513008257 active site 640513008258 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950 640513008259 exoribonuclease II; Provisional; Region: PRK05054 640513008260 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 640513008261 RNB domain; Region: RNB; pfam00773 640513008262 S1 RNA binding domain; Region: S1; pfam00575 640513008263 RNase II stability modulator; Provisional; Region: PRK10060 640513008264 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 640513008265 putative active site [active] 640513008266 heme pocket [chemical binding]; other site 640513008267 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640513008268 metal binding site [ion binding]; metal-binding site 640513008269 active site 640513008270 I-site; other site 640513008271 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; cd01948 640513008272 enoyl-CoA hydratase; Validated; Region: PRK08788 640513008273 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 640513008274 substrate binding site [chemical binding]; other site 640513008275 oxyanion hole (OAH) forming residues; other site 640513008276 trimer interface [polypeptide binding]; other site 640513008277 hypothetical protein; Provisional; Region: PRK13658 640513008278 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640513008279 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 640513008280 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640513008281 lipoprotein; Provisional; Region: PRK10540 640513008282 translation initiation factor Sui1; Validated; Region: PRK06824 640513008283 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 640513008284 putative rRNA binding site [nucleotide binding]; other site 640513008285 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 640513008286 active site 640513008287 dimer interface [polypeptide binding]; other site 640513008288 tetratricopeptide repeat protein; Provisional; Region: PRK11788 640513008289 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 640513008290 binding surface 640513008291 TPR motif; other site 640513008292 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 640513008293 binding surface 640513008294 TPR motif; other site 640513008295 Predicted membrane protein [Function unknown]; Region: COG3771 640513008296 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 640513008297 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 640513008298 active site 640513008299 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 640513008300 dimerization interface [polypeptide binding]; other site 640513008301 active site 640513008302 aconitate hydratase; Validated; Region: PRK09277 640513008303 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 640513008304 substrate binding site [chemical binding]; other site 640513008305 ligand binding site [chemical binding]; other site 640513008306 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 640513008307 substrate binding site [chemical binding]; other site 640513008308 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 640513008309 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513008310 The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold; Region: PBP2_CysB; cd08443 640513008311 substrate binding site [chemical binding]; other site 640513008312 putative dimerization interface [polypeptide binding]; other site 640513008313 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 640513008314 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 640513008315 active site 640513008316 interdomain interaction site; other site 640513008317 putative metal-binding site [ion binding]; other site 640513008318 nucleotide binding site [chemical binding]; other site 640513008319 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 640513008320 domain I; other site 640513008321 DNA binding groove [nucleotide binding] 640513008322 phosphate binding site [ion binding]; other site 640513008323 domain II; other site 640513008324 domain III; other site 640513008325 nucleotide binding site [chemical binding]; other site 640513008326 catalytic site [active] 640513008327 domain IV; other site 640513008328 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 640513008329 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 640513008330 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 640513008331 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 640513008332 hypothetical protein; Provisional; Region: PRK11037 640513008333 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 640513008334 putative inner membrane peptidase; Provisional; Region: PRK11778 640513008335 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 640513008336 tandem repeat interface [polypeptide binding]; other site 640513008337 oligomer interface [polypeptide binding]; other site 640513008338 active site residues [active] 640513008339 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 640513008340 Escherichia coli K-12 YCIK-like, classical (c) SDRs; Region: Ycik_SDR_c; cd05340 640513008341 NADP binding site [chemical binding]; other site 640513008342 homodimer interface [polypeptide binding]; other site 640513008343 active site 640513008344 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 640513008345 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated; Region: PRK05986 640513008346 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 640513008347 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 640513008348 RNA binding surface [nucleotide binding]; other site 640513008349 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 640513008350 probable active site [active] 640513008351 hypothetical protein; Provisional; Region: PRK11630 640513008352 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 640513008353 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 640513008354 active site 640513008355 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 640513008356 anthranilate synthase component I; Provisional; Region: PRK13564 640513008357 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 640513008358 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 640513008359 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK09522 640513008360 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 640513008361 glutamine binding [chemical binding]; other site 640513008362 catalytic triad [active] 640513008363 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 640513008364 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 640513008365 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 640513008366 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 640513008367 active site 640513008368 ribulose/triose binding site [chemical binding]; other site 640513008369 phosphate binding site [ion binding]; other site 640513008370 substrate (anthranilate) binding pocket [chemical binding]; other site 640513008371 product (indole) binding pocket [chemical binding]; other site 640513008372 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 640513008373 active site 640513008374 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 640513008375 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 640513008376 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513008377 catalytic residue [active] 640513008378 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 640513008379 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 640513008380 substrate binding site [chemical binding]; other site 640513008381 active site 640513008382 catalytic residues [active] 640513008383 heterodimer interface [polypeptide binding]; other site 640513008384 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 640513008385 Colicin E1 (microcin) immunity protein; Region: Microcin; pfam03526 640513008386 DinI-like family; Region: DinI; cl11630 640513008387 putative inner membrane protein; Provisional; Region: PRK11099 640513008388 YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system...; Region: YedF; cd03422 640513008389 CPxP motif; other site 640513008390 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 640513008391 Ligand Binding Site [chemical binding]; other site 640513008392 outer membrane protein W; Provisional; Region: PRK10959 640513008393 hypothetical protein; Provisional; Region: PRK02868 640513008394 intracellular septation protein A; Reviewed; Region: PRK00259 640513008395 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 640513008396 transport protein TonB; Provisional; Region: PRK10819 640513008397 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 640513008398 YciI-like protein; Reviewed; Region: PRK11370 640513008399 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 640513008400 classical (c) SDRs; Region: SDR_c; cd05233 640513008401 NAD(P) binding site [chemical binding]; other site 640513008402 active site 640513008403 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640513008404 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513008405 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 640513008406 dimerization interface [polypeptide binding]; other site 640513008407 substrate binding pocket [chemical binding]; other site 640513008408 chloramphenicol acetyltransferase; Provisional; Region: PRK13757 640513008409 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 640513008410 leucine export protein LeuE; Provisional; Region: PRK10958 640513008411 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 640513008412 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 640513008413 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 640513008414 putative active site [active] 640513008415 catalytic site [active] 640513008416 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 640513008417 putative active site [active] 640513008418 catalytic site [active] 640513008419 dsDNA-mimic protein; Reviewed; Region: PRK05094 640513008420 Ion transport protein; Region: Ion_trans; pfam00520 640513008421 Ion channel; Region: Ion_trans_2; pfam07885 640513008422 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 640513008423 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 640513008424 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640513008425 Walker A/P-loop; other site 640513008426 ATP binding site [chemical binding]; other site 640513008427 Q-loop/lid; other site 640513008428 ABC transporter signature motif; other site 640513008429 Walker B; other site 640513008430 D-loop; other site 640513008431 H-loop/switch region; other site 640513008432 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 640513008433 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 640513008434 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640513008435 Walker A/P-loop; other site 640513008436 ATP binding site [chemical binding]; other site 640513008437 Q-loop/lid; other site 640513008438 ABC transporter signature motif; other site 640513008439 Walker B; other site 640513008440 D-loop; other site 640513008441 H-loop/switch region; other site 640513008442 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 640513008443 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 640513008444 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 640513008445 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 640513008446 dimer interface [polypeptide binding]; other site 640513008447 conserved gate region; other site 640513008448 ABC-ATPase subunit interface; other site 640513008449 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 640513008450 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 640513008451 dimer interface [polypeptide binding]; other site 640513008452 conserved gate region; other site 640513008453 putative PBP binding loops; other site 640513008454 ABC-ATPase subunit interface; other site 640513008455 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 640513008456 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 640513008457 peptide binding site [polypeptide binding]; other site 640513008458 hypothetical protein; Provisional; Region: PRK11111 640513008459 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 640513008460 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 640513008461 putative catalytic cysteine [active] 640513008462 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 640513008463 putative active site [active] 640513008464 metal binding site [ion binding]; metal-binding site 640513008465 thymidine kinase; Provisional; Region: PRK04296 640513008466 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 640513008467 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640513008468 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 640513008469 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 640513008470 active site 640513008471 tetramer interface; other site 640513008472 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 640513008473 active site 640513008474 response regulator of RpoS; Provisional; Region: PRK10693 640513008475 phosphorylation site [posttranslational modification] 640513008476 intermolecular recognition site; other site 640513008477 dimerization interface [polypeptide binding]; other site 640513008478 hypothetical protein; Provisional; Region: PRK10279 640513008479 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 640513008480 active site 640513008481 nucleophile elbow; other site 640513008482 SEC-C motif; Region: SEC-C; pfam02810 640513008483 hypothetical protein; Provisional; Region: PRK04233 640513008484 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 640513008485 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 640513008486 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 640513008487 putative active site [active] 640513008488 putative substrate binding site [chemical binding]; other site 640513008489 putative cosubstrate binding site; other site 640513008490 catalytic site [active] 640513008491 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 640513008492 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 640513008493 AsnC family; Region: AsnC_trans_reg; pfam01037 640513008494 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 640513008495 EamA-like transporter family; Region: EamA; pfam00892 640513008496 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 640513008497 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 640513008498 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 640513008499 4Fe-4S binding domain; Region: Fer4; cl02805 640513008500 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 640513008501 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 640513008502 [4Fe-4S] binding site [ion binding]; other site 640513008503 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 640513008504 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 640513008505 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 640513008506 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 640513008507 molybdopterin cofactor binding site; other site 640513008508 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 640513008509 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 640513008510 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 640513008511 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 640513008512 dimerization interface [polypeptide binding]; other site 640513008513 Histidine kinase; Region: HisKA_3; pfam07730 640513008514 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 640513008515 ATP binding site [chemical binding]; other site 640513008516 Mg2+ binding site [ion binding]; other site 640513008517 G-X-G motif; other site 640513008518 transcriptional regulator NarL; Provisional; Region: PRK10651 640513008519 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 640513008520 active site 640513008521 phosphorylation site [posttranslational modification] 640513008522 intermolecular recognition site; other site 640513008523 dimerization interface [polypeptide binding]; other site 640513008524 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 640513008525 DNA binding residues [nucleotide binding] 640513008526 dimerization interface [polypeptide binding]; other site 640513008527 putative invasin; Provisional; Region: PRK10177 640513008528 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 640513008529 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 640513008530 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 640513008531 [4Fe-4S] binding site [ion binding]; other site 640513008532 molybdopterin cofactor binding site; other site 640513008533 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 640513008534 molybdopterin cofactor binding site; other site 640513008535 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 640513008536 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 640513008537 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640513008538 nitrite reductase subunit NirD; Provisional; Region: PRK14989 640513008539 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640513008540 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640513008541 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 640513008542 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640513008543 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 640513008544 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 640513008545 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 640513008546 Walker A/P-loop; other site 640513008547 ATP binding site [chemical binding]; other site 640513008548 Q-loop/lid; other site 640513008549 ABC transporter signature motif; other site 640513008550 Walker B; other site 640513008551 D-loop; other site 640513008552 H-loop/switch region; other site 640513008553 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 640513008554 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 640513008555 dimer interface [polypeptide binding]; other site 640513008556 conserved gate region; other site 640513008557 putative PBP binding loops; other site 640513008558 ABC-ATPase subunit interface; other site 640513008559 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 640513008560 NMT1-like family; Region: NMT1_2; pfam13379 640513008561 Nitrate and nitrite sensing; Region: NIT; pfam08376 640513008562 ANTAR domain; Region: ANTAR; pfam03861 640513008563 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 640513008564 Cache domain; Region: Cache_1; pfam02743 640513008565 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 640513008566 dimerization interface [polypeptide binding]; other site 640513008567 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640513008568 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640513008569 dimer interface [polypeptide binding]; other site 640513008570 putative CheW interface [polypeptide binding]; other site 640513008571 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 640513008572 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 640513008573 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 640513008574 putative active site pocket [active] 640513008575 dimerization interface [polypeptide binding]; other site 640513008576 putative catalytic residue [active] 640513008577 cation transport regulator; Reviewed; Region: chaB; PRK09582 640513008578 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 640513008579 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 640513008580 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 640513008581 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 640513008582 hypothetical protein; Provisional; Region: PRK10941 640513008583 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 640513008584 hypothetical protein; Provisional; Region: PRK10278 640513008585 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 640513008586 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 640513008587 peptide chain release factor 1; Validated; Region: prfA; PRK00591 640513008588 This domain is found in peptide chain release factors; Region: PCRF; smart00937 640513008589 RF-1 domain; Region: RF-1; pfam00472 640513008590 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 640513008591 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 640513008592 tRNA; other site 640513008593 putative tRNA binding site [nucleotide binding]; other site 640513008594 putative NADP binding site [chemical binding]; other site 640513008595 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 640513008596 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 640513008597 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 640513008598 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 640513008599 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 640513008600 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 640513008601 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 640513008602 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 640513008603 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640513008604 active site 640513008605 putative transporter; Provisional; Region: PRK11660 640513008606 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 640513008607 Sulfate transporter family; Region: Sulfate_transp; pfam00916 640513008608 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 640513008609 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 640513008610 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 640513008611 DNA binding residues [nucleotide binding] 640513008612 putative dimer interface [polypeptide binding]; other site 640513008613 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 640513008614 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 640513008615 hypothetical protein; Provisional; Region: PRK10692 640513008616 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 640513008617 putative active site [active] 640513008618 catalytic residue [active] 640513008619 GTP-binding protein YchF; Reviewed; Region: PRK09601 640513008620 YchF GTPase; Region: YchF; cd01900 640513008621 G1 box; other site 640513008622 GTP/Mg2+ binding site [chemical binding]; other site 640513008623 Switch I region; other site 640513008624 G2 box; other site 640513008625 Switch II region; other site 640513008626 G3 box; other site 640513008627 G4 box; other site 640513008628 G5 box; other site 640513008629 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 640513008630 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 640513008631 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 640513008632 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 640513008633 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640513008634 active site 640513008635 catalytic tetrad [active] 640513008636 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513008637 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513008638 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 640513008639 dimerization interface [polypeptide binding]; other site 640513008640 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 640513008641 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 640513008642 putative molybdopterin cofactor binding site [chemical binding]; other site 640513008643 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 640513008644 putative molybdopterin cofactor binding site; other site 640513008645 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513008646 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513008647 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 640513008648 dimerization interface [polypeptide binding]; other site 640513008649 Cupin domain; Region: Cupin_2; cl17218 640513008650 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 640513008651 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 640513008652 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 640513008653 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513008654 Walker A/P-loop; other site 640513008655 ATP binding site [chemical binding]; other site 640513008656 Q-loop/lid; other site 640513008657 ABC transporter signature motif; other site 640513008658 Walker B; other site 640513008659 D-loop; other site 640513008660 H-loop/switch region; other site 640513008661 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 640513008662 dimer interface [polypeptide binding]; other site 640513008663 conserved gate region; other site 640513008664 ABC-ATPase subunit interface; other site 640513008665 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 640513008666 dimer interface [polypeptide binding]; other site 640513008667 conserved gate region; other site 640513008668 ABC-ATPase subunit interface; other site 640513008669 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 640513008670 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 640513008671 active site 640513008672 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 640513008673 non-prolyl cis peptide bond; other site 640513008674 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; cl17432 640513008675 membrane-bound complex binding site; other site 640513008676 hinge residues; other site 640513008677 Fatty acid desaturase protein family subgroup, a delta-12 acyl-lipid desaturase-like, DesA-like, yet uncharacterized subgroup of membrane fatty acid desaturase proteins found in alpha-, beta-, and gamma-proteobacteria. Sequences of this domain family...; Region: DesA_FADS-like; cd03509 640513008678 Fatty acid desaturase; Region: FA_desaturase; pfam00487 640513008679 putative di-iron ligands [ion binding]; other site 640513008680 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 640513008681 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 640513008682 dimer interface [polypeptide binding]; other site 640513008683 active site 640513008684 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 640513008685 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 640513008686 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 640513008687 octamer interface [polypeptide binding]; other site 640513008688 active site 640513008689 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 640513008690 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 640513008691 Coenzyme A transferase; Region: CoA_trans; cl17247 640513008692 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 640513008693 metabolite-proton symporter; Region: 2A0106; TIGR00883 640513008694 putative substrate translocation pore; other site 640513008695 Flavin Reductases; Region: FlaRed; cl00801 640513008696 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 640513008697 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 640513008698 FMN-binding pocket [chemical binding]; other site 640513008699 flavin binding motif; other site 640513008700 phosphate binding motif [ion binding]; other site 640513008701 beta-alpha-beta structure motif; other site 640513008702 NAD binding pocket [chemical binding]; other site 640513008703 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 640513008704 catalytic loop [active] 640513008705 iron binding site [ion binding]; other site 640513008706 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640513008707 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640513008708 NAD(P) binding site [chemical binding]; other site 640513008709 active site 640513008710 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 640513008711 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 640513008712 [2Fe-2S] cluster binding site [ion binding]; other site 640513008713 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 640513008714 putative alpha subunit interface [polypeptide binding]; other site 640513008715 putative active site [active] 640513008716 putative substrate binding site [chemical binding]; other site 640513008717 Fe binding site [ion binding]; other site 640513008718 SnoaL-like domain; Region: SnoaL_4; pfam13577 640513008719 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 640513008720 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 640513008721 active site 640513008722 Amidase; Region: Amidase; cl11426 640513008723 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 640513008724 Transcriptional regulators [Transcription]; Region: MarR; COG1846 640513008725 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 640513008726 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 640513008727 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 640513008728 putative substrate translocation pore; other site 640513008729 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 640513008730 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 640513008731 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 640513008732 conserved cys residue [active] 640513008733 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513008734 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513008735 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 640513008736 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 640513008737 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 640513008738 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 640513008739 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 640513008740 putative substrate translocation pore; other site 640513008741 Cupin; Region: Cupin_6; pfam12852 640513008742 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640513008743 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513008744 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513008745 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 640513008746 putative symporter YagG; Provisional; Region: PRK09669 640513008747 Trehalase; Region: Trehalase; cl17346 640513008748 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 640513008749 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 640513008750 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 640513008751 N-terminal plug; other site 640513008752 ligand-binding site [chemical binding]; other site 640513008753 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 640513008754 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 640513008755 Flagellar regulator YcgR; Region: YcgR; pfam07317 640513008756 PilZ domain; Region: PilZ; pfam07238 640513008757 lytic murein endotransglycosylase E; Provisional; Region: emtA; PRK15470 640513008758 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 640513008759 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640513008760 catalytic residue [active] 640513008761 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 640513008762 dimer interface [polypeptide binding]; other site 640513008763 catalytic triad [active] 640513008764 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 640513008765 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 640513008766 TrkA-C domain; Region: TrkA_C; pfam02080 640513008767 Transporter associated domain; Region: CorC_HlyC; smart01091 640513008768 alanine racemase; Reviewed; Region: dadX; PRK03646 640513008769 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 640513008770 active site 640513008771 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640513008772 substrate binding site [chemical binding]; other site 640513008773 catalytic residues [active] 640513008774 dimer interface [polypeptide binding]; other site 640513008775 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 640513008776 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640513008777 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640513008778 SpoVR family protein; Provisional; Region: PRK11767 640513008779 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 640513008780 fatty acid metabolism regulator; Provisional; Region: PRK04984 640513008781 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640513008782 DNA-binding site [nucleotide binding]; DNA binding site 640513008783 FadR C-terminal domain; Region: FadR_C; pfam07840 640513008784 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 640513008785 disulfide bond formation protein B; Provisional; Region: PRK01749 640513008786 hypothetical protein; Provisional; Region: PRK05170 640513008787 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 640513008788 hypothetical protein; Provisional; Region: PRK10691 640513008789 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 640513008790 septum formation inhibitor; Reviewed; Region: minC; PRK03511 640513008791 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 640513008792 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 640513008793 cell division inhibitor MinD; Provisional; Region: PRK10818 640513008794 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 640513008795 Switch I; other site 640513008796 Switch II; other site 640513008797 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 640513008798 ribonuclease D; Provisional; Region: PRK10829 640513008799 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 640513008800 catalytic site [active] 640513008801 putative active site [active] 640513008802 putative substrate binding site [chemical binding]; other site 640513008803 Helicase and RNase D C-terminal; Region: HRDC; smart00341 640513008804 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 640513008805 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 640513008806 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 640513008807 acyl-activating enzyme (AAE) consensus motif; other site 640513008808 putative AMP binding site [chemical binding]; other site 640513008809 putative active site [active] 640513008810 putative CoA binding site [chemical binding]; other site 640513008811 Starvation-inducible outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: Slp; COG3065 640513008812 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 640513008813 Glycoprotease family; Region: Peptidase_M22; pfam00814 640513008814 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 640513008815 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 640513008816 ATP binding site [chemical binding]; other site 640513008817 DEAD_2; Region: DEAD_2; pfam06733 640513008818 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 640513008819 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 640513008820 homotrimer interaction site [polypeptide binding]; other site 640513008821 putative active site [active] 640513008822 hypothetical protein; Provisional; Region: PRK05114 640513008823 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 640513008824 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 640513008825 aminodeoxychorismate synthase, component I, bacterial clade; Region: pabB; TIGR00553 640513008826 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 640513008827 putative active site [active] 640513008828 putative CoA binding site [chemical binding]; other site 640513008829 nudix motif; other site 640513008830 metal binding site [ion binding]; metal-binding site 640513008831 L-serine deaminase; Provisional; Region: PRK15023 640513008832 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 640513008833 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 640513008834 phage resistance protein; Provisional; Region: PRK10551 640513008835 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 640513008836 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; cd01948 640513008837 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 640513008838 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 640513008839 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 640513008840 Transporter associated domain; Region: CorC_HlyC; smart01091 640513008841 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 640513008842 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 640513008843 active pocket/dimerization site; other site 640513008844 active site 640513008845 phosphorylation site [posttranslational modification] 640513008846 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 640513008847 active site 640513008848 phosphorylation site [posttranslational modification] 640513008849 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 640513008850 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 640513008851 hypothetical protein; Provisional; Region: PRK02913 640513008852 hypothetical protein; Provisional; Region: PRK11469 640513008853 Domain of unknown function DUF; Region: DUF204; pfam02659 640513008854 Domain of unknown function DUF; Region: DUF204; pfam02659 640513008855 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 640513008856 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 640513008857 S-adenosylmethionine binding site [chemical binding]; other site 640513008858 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 640513008859 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 640513008860 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 640513008861 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 640513008862 DNA-binding site [nucleotide binding]; DNA binding site 640513008863 RNA-binding motif; other site 640513008864 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 640513008865 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 640513008866 YebO-like protein; Region: YebO; pfam13974 640513008867 PhoPQ regulatory protein; Provisional; Region: PRK10299 640513008868 YobH-like protein; Region: YobH; pfam13996 640513008869 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 640513008870 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 640513008871 dimerization interface [polypeptide binding]; other site 640513008872 putative Zn2+ binding site [ion binding]; other site 640513008873 putative DNA binding site [nucleotide binding]; other site 640513008874 Bacterial transcriptional regulator; Region: IclR; pfam01614 640513008875 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 640513008876 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640513008877 putative substrate translocation pore; other site 640513008878 heat shock protein HtpX; Provisional; Region: PRK05457 640513008879 carboxy-terminal protease; Provisional; Region: PRK11186 640513008880 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 640513008881 protein binding site [polypeptide binding]; other site 640513008882 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 640513008883 Catalytic dyad [active] 640513008884 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 640513008885 ProP expression regulator; Provisional; Region: PRK04950 640513008886 ProQ/FINO family; Region: ProQ; pfam04352 640513008887 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 640513008888 GAF domain; Region: GAF_2; pfam13185 640513008889 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 640513008890 Paraquat-inducible protein A; Region: PqiA; pfam04403 640513008891 Paraquat-inducible protein A; Region: PqiA; pfam04403 640513008892 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 640513008893 mce related protein; Region: MCE; pfam02470 640513008894 mce related protein; Region: MCE; pfam02470 640513008895 mce related protein; Region: MCE; pfam02470 640513008896 mce related protein; Region: MCE; pfam02470 640513008897 mce related protein; Region: MCE; pfam02470 640513008898 mce related protein; Region: MCE; pfam02470 640513008899 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 640513008900 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 640513008901 S-adenosylmethionine binding site [chemical binding]; other site 640513008902 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 640513008903 Protein of unknown function (DUF1480); Region: DUF1480; pfam07351 640513008904 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 640513008905 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 640513008906 active site 640513008907 metal binding site [ion binding]; metal-binding site 640513008908 Protein of unknown function (DUF535); Region: DUF535; pfam04393 640513008909 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 640513008910 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 640513008911 CopC domain; Region: CopC; cl01012 640513008912 DNA polymerase III subunit theta; Reviewed; Region: PRK10969 640513008913 Predicted amidohydrolase [General function prediction only]; Region: COG0388 640513008914 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 640513008915 exodeoxyribonuclease X; Provisional; Region: PRK07983 640513008916 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 640513008917 active site 640513008918 catalytic site [active] 640513008919 substrate binding site [chemical binding]; other site 640513008920 protease 2; Provisional; Region: PRK10115 640513008921 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 640513008922 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 640513008923 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640513008924 ATP-grasp domain; Region: ATP-grasp; pfam02222 640513008925 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 640513008926 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 640513008927 active site 640513008928 intersubunit interface [polypeptide binding]; other site 640513008929 catalytic residue [active] 640513008930 phosphogluconate dehydratase; Validated; Region: PRK09054 640513008931 6-phosphogluconate dehydratase; Region: edd; TIGR01196 640513008932 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 640513008933 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 640513008934 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 640513008935 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 640513008936 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640513008937 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 640513008938 putative active site [active] 640513008939 pyruvate kinase; Provisional; Region: PRK05826 640513008940 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 640513008941 domain interfaces; other site 640513008942 active site 640513008943 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 640513008944 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 640513008945 putative acyl-acceptor binding pocket; other site 640513008946 putative peptidase; Provisional; Region: PRK11649 640513008947 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 640513008948 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640513008949 Peptidase family M23; Region: Peptidase_M23; pfam01551 640513008950 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 640513008951 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 640513008952 metal binding site [ion binding]; metal-binding site 640513008953 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 640513008954 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 640513008955 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 640513008956 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 640513008957 ABC-ATPase subunit interface; other site 640513008958 dimer interface [polypeptide binding]; other site 640513008959 putative PBP binding regions; other site 640513008960 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 640513008961 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 640513008962 Walker A motif; other site 640513008963 ATP binding site [chemical binding]; other site 640513008964 Walker B motif; other site 640513008965 arginine finger; other site 640513008966 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 640513008967 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 640513008968 RuvA N terminal domain; Region: RuvA_N; pfam01330 640513008969 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 640513008970 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 640513008971 active site 640513008972 putative DNA-binding cleft [nucleotide binding]; other site 640513008973 dimer interface [polypeptide binding]; other site 640513008974 hypothetical protein; Validated; Region: PRK00110 640513008975 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_7; cd04664 640513008976 nudix motif; other site 640513008977 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 640513008978 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 640513008979 dimer interface [polypeptide binding]; other site 640513008980 anticodon binding site; other site 640513008981 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 640513008982 homodimer interface [polypeptide binding]; other site 640513008983 motif 1; other site 640513008984 active site 640513008985 motif 2; other site 640513008986 GAD domain; Region: GAD; pfam02938 640513008987 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 640513008988 active site 640513008989 motif 3; other site 640513008990 Isochorismatase family; Region: Isochorismatase; pfam00857 640513008991 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 640513008992 catalytic triad [active] 640513008993 conserved cis-peptide bond; other site 640513008994 hypothetical protein; Provisional; Region: PRK10302 640513008995 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 640513008996 Methyltransferase domain; Region: Methyltransf_31; pfam13847 640513008997 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 640513008998 S-adenosylmethionine binding site [chemical binding]; other site 640513008999 Methyltransferase domain; Region: Methyltransf_23; pfam13489 640513009000 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 640513009001 S-adenosylmethionine binding site [chemical binding]; other site 640513009002 copper homeostasis protein CutC; Provisional; Region: PRK11572 640513009003 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_4; cd07268 640513009004 putative metal binding site [ion binding]; other site 640513009005 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 640513009006 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 640513009007 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 640513009008 active site 640513009009 HIGH motif; other site 640513009010 KMSK motif region; other site 640513009011 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 640513009012 tRNA binding surface [nucleotide binding]; other site 640513009013 anticodon binding site; other site 640513009014 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 640513009015 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 640513009016 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 640513009017 Flagellar protein FlhE; Region: FlhE; pfam06366 640513009018 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 640513009019 FHIPEP family; Region: FHIPEP; pfam00771 640513009020 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 640513009021 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 640513009022 chemotaxis regulator CheZ; Provisional; Region: PRK11166 640513009023 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 640513009024 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 640513009025 active site 640513009026 phosphorylation site [posttranslational modification] 640513009027 intermolecular recognition site; other site 640513009028 dimerization interface [polypeptide binding]; other site 640513009029 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 640513009030 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 640513009031 active site 640513009032 phosphorylation site [posttranslational modification] 640513009033 intermolecular recognition site; other site 640513009034 dimerization interface [polypeptide binding]; other site 640513009035 CheB methylesterase; Region: CheB_methylest; pfam01339 640513009036 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 640513009037 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 640513009038 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 640513009039 S-adenosylmethionine binding site [chemical binding]; other site 640513009040 methyl-accepting protein IV; Provisional; Region: PRK09793 640513009041 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 640513009042 dimer interface [polypeptide binding]; other site 640513009043 ligand binding site [chemical binding]; other site 640513009044 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 640513009045 dimerization interface [polypeptide binding]; other site 640513009046 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640513009047 dimer interface [polypeptide binding]; other site 640513009048 putative CheW interface [polypeptide binding]; other site 640513009049 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 640513009050 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 640513009051 dimer interface [polypeptide binding]; other site 640513009052 ligand binding site [chemical binding]; other site 640513009053 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 640513009054 dimerization interface [polypeptide binding]; other site 640513009055 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640513009056 dimer interface [polypeptide binding]; other site 640513009057 putative CheW interface [polypeptide binding]; other site 640513009058 Spore Coat Protein U domain; Region: SCPU; pfam05229 640513009059 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 640513009060 PapC N-terminal domain; Region: PapC_N; pfam13954 640513009061 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 640513009062 PapC C-terminal domain; Region: PapC_C; pfam13953 640513009063 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 640513009064 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 640513009065 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 640513009066 Spore Coat Protein U domain; Region: SCPU; pfam05229 640513009067 Spore Coat Protein U domain; Region: SCPU; cl02253 640513009068 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640513009069 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 640513009070 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 640513009071 putative CheA interaction surface; other site 640513009072 chemotaxis protein CheA; Provisional; Region: PRK10547 640513009073 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 640513009074 putative binding surface; other site 640513009075 active site 640513009076 CheY binding; Region: CheY-binding; pfam09078 640513009077 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 640513009078 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 640513009079 ATP binding site [chemical binding]; other site 640513009080 Mg2+ binding site [ion binding]; other site 640513009081 G-X-G motif; other site 640513009082 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 640513009083 flagellar motor protein MotB; Validated; Region: motB; PRK09041 640513009084 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 640513009085 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640513009086 ligand binding site [chemical binding]; other site 640513009087 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 640513009088 flagellar motor protein MotA; Validated; Region: PRK09110 640513009089 transcriptional activator FlhC; Provisional; Region: PRK12722 640513009090 transcriptional activator FlhD; Provisional; Region: PRK02909 640513009091 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 640513009092 Ligand Binding Site [chemical binding]; other site 640513009093 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 640513009094 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 640513009095 active site 640513009096 homotetramer interface [polypeptide binding]; other site 640513009097 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187 640513009098 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 640513009099 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 640513009100 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640513009101 TM-ABC transporter signature motif; other site 640513009102 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 640513009103 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640513009104 Walker A/P-loop; other site 640513009105 ATP binding site [chemical binding]; other site 640513009106 Q-loop/lid; other site 640513009107 ABC transporter signature motif; other site 640513009108 Walker B; other site 640513009109 D-loop; other site 640513009110 H-loop/switch region; other site 640513009111 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640513009112 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 640513009113 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 640513009114 ligand binding site [chemical binding]; other site 640513009115 DJ-1 family protein; Region: not_thiJ; TIGR01383 640513009116 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 640513009117 conserved cys residue [active] 640513009118 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 640513009119 Ferritin-like domain; Region: Ferritin; pfam00210 640513009120 ferroxidase diiron center [ion binding]; other site 640513009121 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 640513009122 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 640513009123 Protein of unknown function (DUF2766); Region: DUF2766; pfam10964 640513009124 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 640513009125 putative substrate translocation pore; other site 640513009126 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 640513009127 hypothetical protein; Provisional; Region: PRK09273 640513009128 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 640513009129 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 640513009130 YecR-like lipoprotein; Region: YecR; pfam13992 640513009131 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 640513009132 Ferritin-like domain; Region: Ferritin; pfam00210 640513009133 ferroxidase diiron center [ion binding]; other site 640513009134 probable metal-binding protein; Region: matur_matur; TIGR03853 640513009135 tyrosine transporter TyrP; Provisional; Region: PRK15132 640513009136 aromatic amino acid transport protein; Region: araaP; TIGR00837 640513009137 hypothetical protein; Provisional; Region: PRK10396 640513009138 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 640513009139 SEC-C motif; Region: SEC-C; pfam02810 640513009140 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640513009141 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 640513009142 dimerization interface [polypeptide binding]; other site 640513009143 ligand binding site [chemical binding]; other site 640513009144 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640513009145 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 640513009146 TM-ABC transporter signature motif; other site 640513009147 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 640513009148 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 640513009149 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 640513009150 TM-ABC transporter signature motif; other site 640513009151 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 640513009152 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640513009153 Walker A/P-loop; other site 640513009154 ATP binding site [chemical binding]; other site 640513009155 Q-loop/lid; other site 640513009156 ABC transporter signature motif; other site 640513009157 Walker B; other site 640513009158 D-loop; other site 640513009159 H-loop/switch region; other site 640513009160 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 640513009161 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640513009162 Walker A/P-loop; other site 640513009163 ATP binding site [chemical binding]; other site 640513009164 Q-loop/lid; other site 640513009165 ABC transporter signature motif; other site 640513009166 Walker B; other site 640513009167 D-loop; other site 640513009168 H-loop/switch region; other site 640513009169 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 640513009170 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 640513009171 active site 640513009172 nucleophile elbow; other site 640513009173 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 640513009174 amidase catalytic site [active] 640513009175 Zn binding residues [ion binding]; other site 640513009176 substrate binding site [chemical binding]; other site 640513009177 phosphatidylglycerophosphate synthetase; Provisional; Region: PRK10832 640513009178 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 640513009179 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 640513009180 GIY-YIG motif/motif A; other site 640513009181 active site 640513009182 catalytic site [active] 640513009183 putative DNA binding site [nucleotide binding]; other site 640513009184 metal binding site [ion binding]; metal-binding site 640513009185 UvrB/uvrC motif; Region: UVR; pfam02151 640513009186 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 640513009187 Helix-hairpin-helix motif; Region: HHH; pfam00633 640513009188 response regulator; Provisional; Region: PRK09483 640513009189 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 640513009190 active site 640513009191 phosphorylation site [posttranslational modification] 640513009192 intermolecular recognition site; other site 640513009193 dimerization interface [polypeptide binding]; other site 640513009194 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 640513009195 DNA binding residues [nucleotide binding] 640513009196 dimerization interface [polypeptide binding]; other site 640513009197 hypothetical protein; Provisional; Region: PRK10613 640513009198 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 640513009199 Autoinducer binding domain; Region: Autoind_bind; pfam03472 640513009200 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 640513009201 DNA binding residues [nucleotide binding] 640513009202 dimerization interface [polypeptide binding]; other site 640513009203 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 640513009204 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640513009205 Walker A/P-loop; other site 640513009206 ATP binding site [chemical binding]; other site 640513009207 Q-loop/lid; other site 640513009208 ABC transporter signature motif; other site 640513009209 Walker B; other site 640513009210 D-loop; other site 640513009211 H-loop/switch region; other site 640513009212 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640513009213 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 640513009214 dimer interface [polypeptide binding]; other site 640513009215 conserved gate region; other site 640513009216 putative PBP binding loops; other site 640513009217 ABC-ATPase subunit interface; other site 640513009218 D-cysteine desulfhydrase; Validated; Region: PRK03910 640513009219 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 640513009220 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513009221 catalytic residue [active] 640513009222 cystine transporter subunit; Provisional; Region: PRK11260 640513009223 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 640513009224 substrate binding pocket [chemical binding]; other site 640513009225 membrane-bound complex binding site; other site 640513009226 hinge residues; other site 640513009227 flagella biosynthesis protein FliZ; Provisional; Region: PRK11582 640513009228 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 640513009229 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640513009230 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 640513009231 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 640513009232 DNA binding residues [nucleotide binding] 640513009233 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 640513009234 active site 640513009235 HIGH motif; other site 640513009236 nucleotide binding site [chemical binding]; other site 640513009237 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 640513009238 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 640513009239 inhibitor-cofactor binding pocket; inhibition site 640513009240 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513009241 catalytic residue [active] 640513009242 Methyltransferase domain; Region: Methyltransf_31; pfam13847 640513009243 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 640513009244 S-adenosylmethionine binding site [chemical binding]; other site 640513009245 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 640513009246 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 640513009247 binding surface 640513009248 TPR motif; other site 640513009249 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 640513009250 TPR motif; other site 640513009251 TPR repeat; Region: TPR_11; pfam13414 640513009252 binding surface 640513009253 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 640513009254 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 640513009255 ATP-grasp domain; Region: ATP-grasp_4; cl17255 640513009256 acetolactate synthase 1 catalytic subunit; Validated; Region: PRK07789 640513009257 WbqC-like protein family; Region: WbqC; pfam08889 640513009258 flagellin; Provisional; Region: PRK12802 640513009259 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 640513009260 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 640513009261 flagellar capping protein; Reviewed; Region: fliD; PRK08032 640513009262 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 640513009263 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 640513009264 flagellar protein FliS; Validated; Region: fliS; PRK05685 640513009265 flagellar biosynthesis protein FliT; Provisional; Region: PRK10548 640513009266 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 640513009267 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 640513009268 active site 640513009269 Na/Ca binding site [ion binding]; other site 640513009270 catalytic site [active] 640513009271 lipoprotein; Provisional; Region: PRK10397 640513009272 Predicted membrane protein [Function unknown]; Region: COG2246 640513009273 GtrA-like protein; Region: GtrA; pfam04138 640513009274 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 640513009275 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 640513009276 Ligand binding site; other site 640513009277 Putative Catalytic site; other site 640513009278 DXD motif; other site 640513009279 Glucosyl transferase GtrII; Region: Glucos_trans_II; pfam14264 640513009280 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 640513009281 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 640513009282 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 640513009283 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 640513009284 Phage-related protein, tail component [Function unknown]; Region: COG4733 640513009285 NlpC/P60 family; Region: NLPC_P60; cl17555 640513009286 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 640513009287 Phage-related minor tail protein [Function unknown]; Region: COG5281 640513009288 tape measure domain; Region: tape_meas_nterm; TIGR02675 640513009289 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 640513009290 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 640513009291 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 640513009292 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 640513009293 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 640513009294 large terminase protein; Provisional; Region: 17; PHA02533 640513009295 Terminase-like family; Region: Terminase_6; pfam03237 640513009296 Terminase small subunit; Region: Terminase_2; pfam03592 640513009297 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 640513009298 catalytic residues [active] 640513009299 Phage holin family (Lysis protein S); Region: Phage_holin_3; pfam05106 640513009300 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 640513009301 Antitermination protein; Region: Antiterm; pfam03589 640513009302 DnaJ central domain; Region: DnaJ_CXXCXGXG; pfam00684 640513009303 Antitermination protein; Region: Antiterm; pfam03589 640513009304 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 640513009305 prophage protein NinE; Provisional; Region: PRK09689 640513009306 NinB protein; Region: NinB; pfam05772 640513009307 Domain of unknown function (DUF4406); Region: DUF4406; pfam14359 640513009308 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 640513009309 putative Zn2+ binding site [ion binding]; other site 640513009310 putative DNA binding site [nucleotide binding]; other site 640513009311 Replication protein P; Region: Phage_lambda_P; pfam06992 640513009312 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 640513009313 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 640513009314 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 640513009315 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 640513009316 non-specific DNA binding site [nucleotide binding]; other site 640513009317 salt bridge; other site 640513009318 sequence-specific DNA binding site [nucleotide binding]; other site 640513009319 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 640513009320 Catalytic site [active] 640513009321 FtsZ inhibitor protein; Reviewed; Region: kil; PRK11354 640513009322 exodeoxyribonuclease X; Provisional; Region: PRK07983 640513009323 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 640513009324 active site 640513009325 catalytic site [active] 640513009326 substrate binding site [chemical binding]; other site 640513009327 Protein of unknown function (DUF1317); Region: DUF1317; pfam07026 640513009328 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 640513009329 Ligand Binding Site [chemical binding]; other site 640513009330 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 640513009331 Active Sites [active] 640513009332 Methyltransferase domain; Region: Methyltransf_23; pfam13489 640513009333 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 640513009334 S-adenosylmethionine binding site [chemical binding]; other site 640513009335 DksA-like zinc finger domain containing protein; Region: PHA00080 640513009336 Methyltransferase domain; Region: Methyltransf_25; pfam13649 640513009337 Domain of unknown function (DUF4222); Region: DUF4222; pfam13973 640513009338 Putative excisionase (DUF1233); Region: DUF1233; pfam06806 640513009339 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 640513009340 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 640513009341 phiCTX phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various phage and bacterial integrases, including those similar to phage integrases: Bordetella and...; Region: INT_phiCTX_C; cd01191 640513009342 Int/Topo IB signature motif; other site 640513009343 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 640513009344 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 640513009345 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 640513009346 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 640513009347 flagellar motor switch protein FliG; Region: fliG; TIGR00207 640513009348 FliG C-terminal domain; Region: FliG_C; pfam01706 640513009349 flagellar assembly protein H; Validated; Region: fliH; PRK05687 640513009350 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 640513009351 Flagellar assembly protein FliH; Region: FliH; pfam02108 640513009352 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07960 640513009353 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 640513009354 Walker A motif/ATP binding site; other site 640513009355 Walker B motif; other site 640513009356 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 640513009357 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 640513009358 flagellar hook-length control protein; Provisional; Region: PRK10118 640513009359 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 640513009360 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 640513009361 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 640513009362 flagellar motor switch protein FliN; Validated; Region: fliN; PRK07963 640513009363 flagellar motor switch protein; Validated; Region: fliN; PRK05698 640513009364 flagellar biosynthesis protein FliO; Provisional; Region: PRK11486 640513009365 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 640513009366 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 640513009367 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 640513009368 colanic acid capsular biosynthesis activation protein A; Provisional; Region: rcsA; PRK15411 640513009369 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 640513009370 DNA binding residues [nucleotide binding] 640513009371 dimerization interface [polypeptide binding]; other site 640513009372 hypothetical protein; Provisional; Region: PRK10708 640513009373 Protein of unknown function (DUF2525); Region: DUF2525; pfam10733 640513009374 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK03669 640513009375 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 640513009376 active site 640513009377 motif I; other site 640513009378 motif II; other site 640513009379 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 640513009380 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640513009381 metal binding site [ion binding]; metal-binding site 640513009382 active site 640513009383 I-site; other site 640513009384 Uncharacterized small protein (DUF2158); Region: DUF2158; cl02293 640513009385 Protein of unknown function (DUF808); Region: DUF808; cl01002 640513009386 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 640513009387 EamA-like transporter family; Region: EamA; pfam00892 640513009388 EamA-like transporter family; Region: EamA; pfam00892 640513009389 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 640513009390 additional DNA contacts [nucleotide binding]; other site 640513009391 mismatch recognition site; other site 640513009392 active site 640513009393 zinc binding site [ion binding]; other site 640513009394 DNA intercalation site [nucleotide binding]; other site 640513009395 DNA cytosine methylase; Provisional; Region: PRK10458 640513009396 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 640513009397 cofactor binding site; other site 640513009398 DNA binding site [nucleotide binding] 640513009399 substrate interaction site [chemical binding]; other site 640513009400 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 640513009401 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 640513009402 Zn2+ binding site [ion binding]; other site 640513009403 Mg2+ binding site [ion binding]; other site 640513009404 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640513009405 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 640513009406 trimer interface [polypeptide binding]; other site 640513009407 eyelet of channel; other site 640513009408 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 640513009409 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 640513009410 putative active site [active] 640513009411 sensory histidine kinase DcuS; Provisional; Region: PRK11086 640513009412 PAS domain; Region: PAS; smart00091 640513009413 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 640513009414 ATP binding site [chemical binding]; other site 640513009415 Mg2+ binding site [ion binding]; other site 640513009416 G-X-G motif; other site 640513009417 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 640513009418 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 640513009419 active site 640513009420 phosphorylation site [posttranslational modification] 640513009421 intermolecular recognition site; other site 640513009422 dimerization interface [polypeptide binding]; other site 640513009423 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 640513009424 ApbE family; Region: ApbE; pfam02424 640513009425 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 640513009426 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 640513009427 putative active site [active] 640513009428 putative FMN binding site [chemical binding]; other site 640513009429 putative substrate binding site [chemical binding]; other site 640513009430 putative catalytic residue [active] 640513009431 FMN-binding domain; Region: FMN_bind; cl01081 640513009432 L-aspartate oxidase; Provisional; Region: PRK06175 640513009433 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 640513009434 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 640513009435 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; cd00625 640513009436 transmembrane helices; other site 640513009437 fumarate hydratase; Provisional; Region: PRK15389 640513009438 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 640513009439 Fumarase C-terminus; Region: Fumerase_C; pfam05683 640513009440 DgsA anti-repressor MtfA; Provisional; Region: PRK15410 640513009441 PemK-like protein; Region: PemK; cl00995 640513009442 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 640513009443 transcriptional regulator Cbl; Reviewed; Region: cbl; PRK12679 640513009444 The C-terminal substrate binding domain of LysR-type transcriptional regulator Cbl, which is required for expression of sulfate starvation-inducible (ssi) genes, contains the type 2 periplasmic binding fold; Region: PBP2_Cbl; cd08444 640513009445 putative substrate binding site [chemical binding]; other site 640513009446 dimerization interface [polypeptide binding]; other site 640513009447 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 640513009448 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513009449 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 640513009450 putative dimerization interface [polypeptide binding]; other site 640513009451 L,D-transpeptidase; Provisional; Region: PRK10190 640513009452 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 640513009453 shikimate transporter; Provisional; Region: PRK09952 640513009454 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 640513009455 putative substrate translocation pore; other site 640513009456 AMP nucleosidase; Provisional; Region: PRK08292 640513009457 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 640513009458 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 640513009459 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 640513009460 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 640513009461 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 640513009462 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 640513009463 active site 640513009464 MATE family multidrug exporter; Provisional; Region: PRK10189 640513009465 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 640513009466 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 640513009467 putative active site pocket [active] 640513009468 dimerization interface [polypeptide binding]; other site 640513009469 putative catalytic residue [active] 640513009470 hypothetical protein; Provisional; Region: PRK05423 640513009471 Predicted membrane protein [Function unknown]; Region: COG1289 640513009472 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 640513009473 DNA gyrase inhibitor; Provisional; Region: PRK10016 640513009474 D-alanyl-D-alanine carboxypeptidase; Provisional; Region: dacD; PRK11397 640513009475 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 640513009476 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 640513009477 exonuclease I; Provisional; Region: sbcB; PRK11779 640513009478 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 640513009479 active site 640513009480 catalytic site [active] 640513009481 substrate binding site [chemical binding]; other site 640513009482 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 640513009483 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 640513009484 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513009485 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 640513009486 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 640513009487 dimerization interface [polypeptide binding]; other site 640513009488 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640513009489 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 640513009490 putative NAD(P) binding site [chemical binding]; other site 640513009491 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 640513009492 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 640513009493 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 640513009494 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 640513009495 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 640513009496 NAD binding site [chemical binding]; other site 640513009497 dimerization interface [polypeptide binding]; other site 640513009498 product binding site; other site 640513009499 substrate binding site [chemical binding]; other site 640513009500 zinc binding site [ion binding]; other site 640513009501 catalytic residues [active] 640513009502 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 640513009503 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 640513009504 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513009505 homodimer interface [polypeptide binding]; other site 640513009506 catalytic residue [active] 640513009507 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 640513009508 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 640513009509 active site 640513009510 motif I; other site 640513009511 motif II; other site 640513009512 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 640513009513 putative active site pocket [active] 640513009514 4-fold oligomerization interface [polypeptide binding]; other site 640513009515 metal binding residues [ion binding]; metal-binding site 640513009516 3-fold/trimer interface [polypeptide binding]; other site 640513009517 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 640513009518 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 640513009519 putative active site [active] 640513009520 oxyanion strand; other site 640513009521 catalytic triad [active] 640513009522 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 640513009523 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 640513009524 catalytic residues [active] 640513009525 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 640513009526 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 640513009527 substrate binding site [chemical binding]; other site 640513009528 glutamase interaction surface [polypeptide binding]; other site 640513009529 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 640513009530 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 640513009531 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 640513009532 metal binding site [ion binding]; metal-binding site 640513009533 chain length determinant protein WzzB; Provisional; Region: PRK15471 640513009534 Chain length determinant protein; Region: Wzz; cl15801 640513009535 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 640513009536 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 640513009537 putative NAD(P) binding site [chemical binding]; other site 640513009538 active site 640513009539 putative substrate binding site [chemical binding]; other site 640513009540 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 640513009541 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 640513009542 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 640513009543 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 640513009544 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640513009545 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 640513009546 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 640513009547 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 640513009548 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 640513009549 substrate binding site; other site 640513009550 tetramer interface; other site 640513009551 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 640513009552 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 640513009553 NAD binding site [chemical binding]; other site 640513009554 substrate binding site [chemical binding]; other site 640513009555 homodimer interface [polypeptide binding]; other site 640513009556 active site 640513009557 undecaprenyl-phosphate galactose phosphotransferase; Provisional; Region: PRK15204 640513009558 Bacterial sugar transferase; Region: Bac_transf; pfam02397 640513009559 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640513009560 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 640513009561 putative ADP-binding pocket [chemical binding]; other site 640513009562 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: GT1_like_1; cd04950 640513009563 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 640513009564 putative homodimer interface [polypeptide binding]; other site 640513009565 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 640513009566 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 640513009567 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 640513009568 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 640513009569 PEP-CTERM/exosortase A-associated glycosyltransferase, Daro_2409 family; Region: stp3; TIGR04063 640513009570 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: GT1_like_7; cd05844 640513009571 putative ADP-binding pocket [chemical binding]; other site 640513009572 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 640513009573 O-Antigen ligase; Region: Wzy_C; pfam04932 640513009574 phosphomannomutase CpsG; Provisional; Region: PRK15414 640513009575 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 640513009576 active site 640513009577 substrate binding site [chemical binding]; other site 640513009578 metal binding site [ion binding]; metal-binding site 640513009579 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 640513009580 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 640513009581 Substrate binding site; other site 640513009582 Cupin domain; Region: Cupin_2; cl17218 640513009583 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 640513009584 active site 640513009585 tetramer interface; other site 640513009586 putative colanic acid biosynthesis protein; Provisional; Region: wcaM; PRK10123 640513009587 colanic acid biosynthesis glycosyltransferase WcaL; Provisional; Region: PRK15427 640513009588 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 640513009589 putative ADP-binding pocket [chemical binding]; other site 640513009590 colanic acid biosynthesis pyruvyl transferase WcaK; Region: wcaK; TIGR04006 640513009591 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 640513009592 colanic acid exporter; Provisional; Region: PRK10459 640513009593 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 640513009594 putative UDP-glucose lipid carrier transferase; Provisional; Region: PRK10124 640513009595 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 640513009596 phosphomannomutase CpsG; Provisional; Region: PRK15414 640513009597 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 640513009598 active site 640513009599 substrate binding site [chemical binding]; other site 640513009600 metal binding site [ion binding]; metal-binding site 640513009601 mannose-1-phosphate guanyltransferase; Provisional; Region: cpsB; PRK15460 640513009602 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 640513009603 Substrate binding site; other site 640513009604 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 640513009605 colanic acid biosynthesis glycosyl transferase WcaI; Region: wcaI; TIGR04007 640513009606 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 640513009607 GDP-mannose glycosyl hydrolase (AKA GDP-mannose mannosyl hydrolase (GDPMH)) is a member of the Nudix hydrolase superfamily. This class of enzymes is unique from other members of the superfamily in two aspects. First, it contains a modified Nudix...; Region: GDPMH; cd03430 640513009608 active site 640513009609 GDP-Mannose binding site [chemical binding]; other site 640513009610 dimer interface [polypeptide binding]; other site 640513009611 modified nudix motif 640513009612 metal binding site [ion binding]; metal-binding site 640513009613 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 640513009614 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 640513009615 NADP binding site [chemical binding]; other site 640513009616 active site 640513009617 putative substrate binding site [chemical binding]; other site 640513009618 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 640513009619 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 640513009620 NADP-binding site; other site 640513009621 homotetramer interface [polypeptide binding]; other site 640513009622 substrate binding site [chemical binding]; other site 640513009623 homodimer interface [polypeptide binding]; other site 640513009624 active site 640513009625 colanic acid biosynthesis acetyltransferase WcaF; Region: WcaF; TIGR04008 640513009626 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 640513009627 putative trimer interface [polypeptide binding]; other site 640513009628 putative active site [active] 640513009629 putative substrate binding site [chemical binding]; other site 640513009630 putative CoA binding site [chemical binding]; other site 640513009631 putative glycosyl transferase; Provisional; Region: PRK10063 640513009632 colanic acid biosynthesis glycosyl transferase WcaE; Region: wcaE; TIGR04009 640513009633 active site 640513009634 putative colanic acid polymerase WcaD; Region: WcaD; TIGR04010 640513009635 colanic acid biosynthesis glycosyl transferase WcaC; Region: WcaC; TIGR04015 640513009636 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 640513009637 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 640513009638 putative acyl transferase; Provisional; Region: PRK10191 640513009639 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 640513009640 trimer interface [polypeptide binding]; other site 640513009641 active site 640513009642 substrate binding site [chemical binding]; other site 640513009643 CoA binding site [chemical binding]; other site 640513009644 putative glycosyl transferase; Provisional; Region: PRK10018 640513009645 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 640513009646 active site 640513009647 tyrosine kinase; Provisional; Region: PRK11519 640513009648 Chain length determinant protein; Region: Wzz; pfam02706 640513009649 Chain length determinant protein; Region: Wzz; cl15801 640513009650 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 640513009651 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 640513009652 Low molecular weight phosphatase family; Region: LMWPc; cd00115 640513009653 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 640513009654 active site 640513009655 polysaccharide export protein Wza; Provisional; Region: PRK15078 640513009656 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 640513009657 SLBB domain; Region: SLBB; pfam10531 640513009658 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 640513009659 FOG: CBS domain [General function prediction only]; Region: COG0517 640513009660 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 640513009661 Transporter associated domain; Region: CorC_HlyC; smart01091 640513009662 putative assembly protein; Provisional; Region: PRK10833 640513009663 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 640513009664 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 640513009665 trimer interface [polypeptide binding]; other site 640513009666 active site 640513009667 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 640513009668 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 640513009669 ATP-binding site [chemical binding]; other site 640513009670 Sugar specificity; other site 640513009671 Pyrimidine base specificity; other site 640513009672 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 640513009673 putative diguanylate cyclase; Provisional; Region: PRK09776 640513009674 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 640513009675 putative active site [active] 640513009676 heme pocket [chemical binding]; other site 640513009677 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 640513009678 putative active site [active] 640513009679 heme pocket [chemical binding]; other site 640513009680 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 640513009681 putative active site [active] 640513009682 heme pocket [chemical binding]; other site 640513009683 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640513009684 metal binding site [ion binding]; metal-binding site 640513009685 active site 640513009686 I-site; other site 640513009687 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 640513009688 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 640513009689 AlkA N-terminal domain; Region: AlkA_N; smart01009 640513009690 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 640513009691 helix-hairpin-helix signature motif; other site 640513009692 substrate binding pocket [chemical binding]; other site 640513009693 active site 640513009694 putative chaperone; Provisional; Region: PRK11678 640513009695 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 640513009696 nucleotide binding site [chemical binding]; other site 640513009697 putative NEF/HSP70 interaction site [polypeptide binding]; other site 640513009698 SBD interface [polypeptide binding]; other site 640513009699 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cl00942 640513009700 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 640513009701 DCoH tetramer interaction site [polypeptide binding]; other site 640513009702 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; cd01948 640513009703 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; cl17355 640513009704 DNA binding site [nucleotide binding] 640513009705 putative fimbrial protein TcfA; Provisional; Region: PRK15308 640513009706 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 640513009707 putative fimbrial protein TcfA; Provisional; Region: PRK15308 640513009708 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 640513009709 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640513009710 HlyD family secretion protein; Region: HlyD_3; pfam13437 640513009711 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 640513009712 Protein export membrane protein; Region: SecD_SecF; cl14618 640513009713 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 640513009714 putative transporter; Provisional; Region: PRK10504 640513009715 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 640513009716 putative substrate translocation pore; other site 640513009717 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 640513009718 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 640513009719 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 640513009720 dimerization interface [polypeptide binding]; other site 640513009721 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 640513009722 dimer interface [polypeptide binding]; other site 640513009723 phosphorylation site [posttranslational modification] 640513009724 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 640513009725 ATP binding site [chemical binding]; other site 640513009726 Mg2+ binding site [ion binding]; other site 640513009727 G-X-G motif; other site 640513009728 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 640513009729 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 640513009730 active site 640513009731 phosphorylation site [posttranslational modification] 640513009732 intermolecular recognition site; other site 640513009733 dimerization interface [polypeptide binding]; other site 640513009734 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 640513009735 DNA binding site [nucleotide binding] 640513009736 Uncharacterized conserved protein [Function unknown]; Region: COG3422 640513009737 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 640513009738 putative protease; Provisional; Region: PRK15452 640513009739 Peptidase family U32; Region: Peptidase_U32; pfam01136 640513009740 Uncharacterized conserved protein [Function unknown]; Region: COG1683 640513009741 lipid kinase; Reviewed; Region: PRK13054 640513009742 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 640513009743 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 640513009744 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640513009745 Walker A/P-loop; other site 640513009746 ATP binding site [chemical binding]; other site 640513009747 Q-loop/lid; other site 640513009748 ABC transporter signature motif; other site 640513009749 Walker B; other site 640513009750 D-loop; other site 640513009751 H-loop/switch region; other site 640513009752 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 640513009753 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640513009754 Walker A/P-loop; other site 640513009755 ATP binding site [chemical binding]; other site 640513009756 Q-loop/lid; other site 640513009757 ABC transporter signature motif; other site 640513009758 Walker B; other site 640513009759 D-loop; other site 640513009760 H-loop/switch region; other site 640513009761 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640513009762 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 640513009763 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 640513009764 dimer interface [polypeptide binding]; other site 640513009765 conserved gate region; other site 640513009766 ABC-ATPase subunit interface; other site 640513009767 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640513009768 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 640513009769 dimer interface [polypeptide binding]; other site 640513009770 conserved gate region; other site 640513009771 putative PBP binding loops; other site 640513009772 ABC-ATPase subunit interface; other site 640513009773 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640513009774 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 640513009775 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 640513009776 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 4. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_4; cd03329 640513009777 putative active site pocket [active] 640513009778 metal binding site [ion binding]; metal-binding site 640513009779 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; cl00021 640513009780 active site 640513009781 phosphorylation site [posttranslational modification] 640513009782 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 640513009783 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 640513009784 putative active site; other site 640513009785 catalytic residue [active] 640513009786 nucleoside transporter; Region: 2A0110; TIGR00889 640513009787 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 640513009788 putative substrate translocation pore; other site 640513009789 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 640513009790 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 640513009791 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640513009792 substrate binding site [chemical binding]; other site 640513009793 ATP binding site [chemical binding]; other site 640513009794 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 640513009795 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640513009796 DNA-binding site [nucleotide binding]; DNA binding site 640513009797 UTRA domain; Region: UTRA; pfam07702 640513009798 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 640513009799 dimer interface [polypeptide binding]; other site 640513009800 substrate binding site [chemical binding]; other site 640513009801 ATP binding site [chemical binding]; other site 640513009802 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 640513009803 substrate binding site [chemical binding]; other site 640513009804 multimerization interface [polypeptide binding]; other site 640513009805 ATP binding site [chemical binding]; other site 640513009806 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 640513009807 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 640513009808 inhibitor-cofactor binding pocket; inhibition site 640513009809 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513009810 catalytic residue [active] 640513009811 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 640513009812 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513009813 catalytic residue [active] 640513009814 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional; Region: PRK09841 640513009815 Chain length determinant protein; Region: Wzz; pfam02706 640513009816 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 640513009817 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 640513009818 Nucleotide binding site [chemical binding]; other site 640513009819 DTAP/Switch II; other site 640513009820 Switch I; other site 640513009821 Low molecular weight phosphatase family; Region: LMWPc; cd00115 640513009822 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 640513009823 active site 640513009824 polysaccharide export protein Wza; Provisional; Region: PRK15078 640513009825 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 640513009826 SLBB domain; Region: SLBB; pfam10531 640513009827 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 640513009828 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 640513009829 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640513009830 Coenzyme A binding pocket [chemical binding]; other site 640513009831 antiporter inner membrane protein; Provisional; Region: PRK11670 640513009832 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 640513009833 Walker A motif; other site 640513009834 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 640513009835 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 640513009836 active site 640513009837 HIGH motif; other site 640513009838 KMSKS motif; other site 640513009839 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 640513009840 tRNA binding surface [nucleotide binding]; other site 640513009841 anticodon binding site; other site 640513009842 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 640513009843 dimer interface [polypeptide binding]; other site 640513009844 putative tRNA-binding site [nucleotide binding]; other site 640513009845 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 640513009846 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 640513009847 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 640513009848 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 640513009849 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 640513009850 active site 640513009851 phosphorylation site [posttranslational modification] 640513009852 intermolecular recognition site; other site 640513009853 dimerization interface [polypeptide binding]; other site 640513009854 LytTr DNA-binding domain; Region: LytTR; pfam04397 640513009855 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 640513009856 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 640513009857 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 640513009858 Histidine kinase; Region: His_kinase; pfam06580 640513009859 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 640513009860 ATP binding site [chemical binding]; other site 640513009861 Mg2+ binding site [ion binding]; other site 640513009862 G-X-G motif; other site 640513009863 transcriptional regulator MirA; Provisional; Region: PRK15043 640513009864 Helix-Turn-Helix DNA binding domain of MlrA-like transcription regulators; Region: HTH_MlrA-like; cd04763 640513009865 DNA binding residues [nucleotide binding] 640513009866 hypothetical protein; Provisional; Region: PRK13681 640513009867 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 640513009868 putative PBP binding loops; other site 640513009869 ABC-ATPase subunit interface; other site 640513009870 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 640513009871 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 640513009872 Walker A/P-loop; other site 640513009873 ATP binding site [chemical binding]; other site 640513009874 Q-loop/lid; other site 640513009875 ABC transporter signature motif; other site 640513009876 Walker B; other site 640513009877 D-loop; other site 640513009878 H-loop/switch region; other site 640513009879 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 640513009880 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 640513009881 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 640513009882 polyol permease family; Region: 2A0118; TIGR00897 640513009883 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 640513009884 putative substrate translocation pore; other site 640513009885 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 640513009886 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 640513009887 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 640513009888 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 640513009889 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 640513009890 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 640513009891 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 640513009892 D-lactate dehydrogenase; Provisional; Region: PRK11183 640513009893 FAD binding domain; Region: FAD_binding_4; pfam01565 640513009894 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 640513009895 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 640513009896 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640513009897 Coenzyme A binding pocket [chemical binding]; other site 640513009898 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 640513009899 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 640513009900 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 640513009901 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 640513009902 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 640513009903 multidrug resistance outer membrane protein MdtQ; Provisional; Region: PRK11459 640513009904 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 640513009905 beta-galactosidase; Region: BGL; TIGR03356 640513009906 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional; Region: PRK09824 640513009907 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 640513009908 active site turn [active] 640513009909 phosphorylation site [posttranslational modification] 640513009910 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 640513009911 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 640513009912 HPr interaction site; other site 640513009913 glycerol kinase (GK) interaction site [polypeptide binding]; other site 640513009914 active site 640513009915 phosphorylation site [posttranslational modification] 640513009916 transcriptional antiterminator BglG; Provisional; Region: PRK09772 640513009917 CAT RNA binding domain; Region: CAT_RBD; smart01061 640513009918 PRD domain; Region: PRD; pfam00874 640513009919 PRD domain; Region: PRD; pfam00874 640513009920 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 640513009921 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 640513009922 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 640513009923 FMN binding site [chemical binding]; other site 640513009924 active site 640513009925 catalytic residues [active] 640513009926 substrate binding site [chemical binding]; other site 640513009927 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640513009928 Helix-turn-helix domain; Region: HTH_18; pfam12833 640513009929 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 640513009930 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 640513009931 catalytic triad [active] 640513009932 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 640513009933 active site 640513009934 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 640513009935 hypothetical protein; Provisional; Region: PRK01821 640513009936 hypothetical protein; Provisional; Region: PRK10711 640513009937 cytidine deaminase; Provisional; Region: PRK09027 640513009938 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 640513009939 active site 640513009940 catalytic motif [active] 640513009941 Zn binding site [ion binding]; other site 640513009942 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 640513009943 active site 640513009944 catalytic motif [active] 640513009945 Zn binding site [ion binding]; other site 640513009946 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 640513009947 putative active site [active] 640513009948 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 640513009949 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 640513009950 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640513009951 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 640513009952 TM-ABC transporter signature motif; other site 640513009953 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640513009954 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 640513009955 Walker A/P-loop; other site 640513009956 ATP binding site [chemical binding]; other site 640513009957 Q-loop/lid; other site 640513009958 ABC transporter signature motif; other site 640513009959 Walker B; other site 640513009960 D-loop; other site 640513009961 H-loop/switch region; other site 640513009962 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640513009963 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 640513009964 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 640513009965 ligand binding site [chemical binding]; other site 640513009966 calcium binding site [ion binding]; other site 640513009967 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 640513009968 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640513009969 DNA binding site [nucleotide binding] 640513009970 domain linker motif; other site 640513009971 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 640513009972 dimerization interface (closed form) [polypeptide binding]; other site 640513009973 ligand binding site [chemical binding]; other site 640513009974 Predicted membrane protein [Function unknown]; Region: COG2311 640513009975 hypothetical protein; Provisional; Region: PRK10835 640513009976 GTP cyclohydrolase I; Provisional; Region: PLN03044 640513009977 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 640513009978 active site 640513009979 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 640513009980 putative substrate translocation pore; other site 640513009981 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 640513009982 S-formylglutathione hydrolase; Region: PLN02442 640513009983 catecholate siderophore receptor CirA; Provisional; Region: PRK10064 640513009984 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 640513009985 N-terminal plug; other site 640513009986 ligand-binding site [chemical binding]; other site 640513009987 lysine transporter; Provisional; Region: PRK10836 640513009988 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 640513009989 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513009990 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 640513009991 putative dimerization interface [polypeptide binding]; other site 640513009992 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 640513009993 endonuclease IV; Provisional; Region: PRK01060 640513009994 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 640513009995 AP (apurinic/apyrimidinic) site pocket; other site 640513009996 DNA interaction; other site 640513009997 Metal-binding active site; metal-binding site 640513009998 putative kinase; Provisional; Region: PRK09954 640513009999 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 640513010000 putative DNA binding site [nucleotide binding]; other site 640513010001 putative Zn2+ binding site [ion binding]; other site 640513010002 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 640513010003 substrate binding site [chemical binding]; other site 640513010004 ATP binding site [chemical binding]; other site 640513010005 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 640513010006 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 640513010007 Nucleoside recognition; Region: Gate; pfam07670 640513010008 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 640513010009 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 640513010010 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 640513010011 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640513010012 substrate binding site [chemical binding]; other site 640513010013 ATP binding site [chemical binding]; other site 640513010014 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 640513010015 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 640513010016 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 640513010017 active site 640513010018 P-loop; other site 640513010019 phosphorylation site [posttranslational modification] 640513010020 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 640513010021 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 640513010022 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 640513010023 putative substrate binding site [chemical binding]; other site 640513010024 putative ATP binding site [chemical binding]; other site 640513010025 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 640513010026 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 640513010027 active site 640513010028 phosphorylation site [posttranslational modification] 640513010029 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 640513010030 dimerization domain swap beta strand [polypeptide binding]; other site 640513010031 regulatory protein interface [polypeptide binding]; other site 640513010032 active site 640513010033 regulatory phosphorylation site [posttranslational modification]; other site 640513010034 sugar efflux transporter B; Provisional; Region: PRK15011 640513010035 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 640513010036 putative substrate translocation pore; other site 640513010037 Flagellin N-methylase; Region: FliB; cl00497 640513010038 elongation factor P; Provisional; Region: PRK04542 640513010039 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 640513010040 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 640513010041 RNA binding site [nucleotide binding]; other site 640513010042 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 640513010043 RNA binding site [nucleotide binding]; other site 640513010044 mannonate dehydratase; Provisional; Region: PRK03906 640513010045 mannonate dehydratase; Region: uxuA; TIGR00695 640513010046 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 640513010047 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 640513010048 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 640513010049 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 640513010050 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 640513010051 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 640513010052 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 640513010053 active site 640513010054 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 640513010055 NlpC/P60 family; Region: NLPC_P60; pfam00877 640513010056 phage resistance protein; Provisional; Region: PRK10551 640513010057 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 640513010058 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; cd01948 640513010059 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 640513010060 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 640513010061 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 640513010062 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 640513010063 dimer interface [polypeptide binding]; other site 640513010064 conserved gate region; other site 640513010065 putative PBP binding loops; other site 640513010066 ABC-ATPase subunit interface; other site 640513010067 microcin C ABC transporter permease; Provisional; Region: PRK15021 640513010068 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 640513010069 dimer interface [polypeptide binding]; other site 640513010070 conserved gate region; other site 640513010071 ABC-ATPase subunit interface; other site 640513010072 microcin C ABC transporter ATP-binding protein YejF; Provisional; Region: PRK15134 640513010073 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640513010074 Walker A/P-loop; other site 640513010075 ATP binding site [chemical binding]; other site 640513010076 Q-loop/lid; other site 640513010077 ABC transporter signature motif; other site 640513010078 Walker B; other site 640513010079 D-loop; other site 640513010080 H-loop/switch region; other site 640513010081 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640513010082 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640513010083 Walker A/P-loop; other site 640513010084 ATP binding site [chemical binding]; other site 640513010085 Q-loop/lid; other site 640513010086 ABC transporter signature motif; other site 640513010087 Walker B; other site 640513010088 D-loop; other site 640513010089 H-loop/switch region; other site 640513010090 hypothetical protein; Provisional; Region: PRK11835 640513010091 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 640513010092 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 640513010093 putative substrate translocation pore; other site 640513010094 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 640513010095 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 640513010096 RNA binding surface [nucleotide binding]; other site 640513010097 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 640513010098 active site 640513010099 uracil binding [chemical binding]; other site 640513010100 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 640513010101 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 640513010102 ATP binding site [chemical binding]; other site 640513010103 putative Mg++ binding site [ion binding]; other site 640513010104 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 640513010105 nucleotide binding region [chemical binding]; other site 640513010106 ATP-binding site [chemical binding]; other site 640513010107 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 640513010108 5S rRNA interface [nucleotide binding]; other site 640513010109 CTC domain interface [polypeptide binding]; other site 640513010110 L16 interface [polypeptide binding]; other site 640513010111 Nucleoid-associated protein [General function prediction only]; Region: COG3081 640513010112 nucleoid-associated protein NdpA; Validated; Region: PRK00378 640513010113 hypothetical protein; Provisional; Region: PRK13689 640513010114 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 640513010115 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 640513010116 Sulfatase; Region: Sulfatase; pfam00884 640513010117 Protein of unknown function (DUF2534); Region: DUF2534; pfam10749 640513010118 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cd00242 640513010119 secondary substrate binding site; other site 640513010120 primary substrate binding site; other site 640513010121 inhibition loop; other site 640513010122 dimerization interface [polypeptide binding]; other site 640513010123 malate:quinone oxidoreductase; Validated; Region: PRK05257 640513010124 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 640513010125 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 640513010126 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 640513010127 Sulfate transporter family; Region: Sulfate_transp; pfam00916 640513010128 MgtE intracellular N domain; Region: MgtE_N; cl15244 640513010129 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 640513010130 MgtE intracellular N domain; Region: MgtE_N; smart00924 640513010131 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 640513010132 Divalent cation transporter; Region: MgtE; cl00786 640513010133 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 640513010134 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 640513010135 Walker A/P-loop; other site 640513010136 ATP binding site [chemical binding]; other site 640513010137 Q-loop/lid; other site 640513010138 ABC transporter signature motif; other site 640513010139 Walker B; other site 640513010140 D-loop; other site 640513010141 H-loop/switch region; other site 640513010142 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 640513010143 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 640513010144 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 640513010145 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513010146 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 640513010147 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 640513010148 DNA binding site [nucleotide binding] 640513010149 active site 640513010150 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 640513010151 ApbE family; Region: ApbE; pfam02424 640513010152 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 640513010153 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 640513010154 trimer interface [polypeptide binding]; other site 640513010155 eyelet of channel; other site 640513010156 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 640513010157 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 640513010158 ATP binding site [chemical binding]; other site 640513010159 Mg2+ binding site [ion binding]; other site 640513010160 G-X-G motif; other site 640513010161 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 640513010162 putative binding surface; other site 640513010163 active site 640513010164 transcriptional regulator RcsB; Provisional; Region: PRK10840 640513010165 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 640513010166 active site 640513010167 phosphorylation site [posttranslational modification] 640513010168 intermolecular recognition site; other site 640513010169 dimerization interface [polypeptide binding]; other site 640513010170 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 640513010171 DNA binding residues [nucleotide binding] 640513010172 dimerization interface [polypeptide binding]; other site 640513010173 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 640513010174 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 640513010175 dimer interface [polypeptide binding]; other site 640513010176 phosphorylation site [posttranslational modification] 640513010177 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 640513010178 ATP binding site [chemical binding]; other site 640513010179 Mg2+ binding site [ion binding]; other site 640513010180 G-X-G motif; other site 640513010181 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 640513010182 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 640513010183 active site 640513010184 phosphorylation site [posttranslational modification] 640513010185 intermolecular recognition site; other site 640513010186 dimerization interface [polypeptide binding]; other site 640513010187 DNA gyrase subunit A; Validated; Region: PRK05560 640513010188 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 640513010189 CAP-like domain; other site 640513010190 active site 640513010191 primary dimer interface [polypeptide binding]; other site 640513010192 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640513010193 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640513010194 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640513010195 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640513010196 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640513010197 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640513010198 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 640513010199 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 640513010200 S-adenosylmethionine binding site [chemical binding]; other site 640513010201 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 640513010202 ATP cone domain; Region: ATP-cone; pfam03477 640513010203 Class I ribonucleotide reductase; Region: RNR_I; cd01679 640513010204 active site 640513010205 dimer interface [polypeptide binding]; other site 640513010206 catalytic residues [active] 640513010207 effector binding site; other site 640513010208 R2 peptide binding site; other site 640513010209 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 640513010210 dimer interface [polypeptide binding]; other site 640513010211 putative radical transfer pathway; other site 640513010212 diiron center [ion binding]; other site 640513010213 tyrosyl radical; other site 640513010214 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 640513010215 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 640513010216 catalytic loop [active] 640513010217 iron binding site [ion binding]; other site 640513010218 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 640513010219 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 640513010220 active site 640513010221 catalytic site [active] 640513010222 metal binding site [ion binding]; metal-binding site 640513010223 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 640513010224 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 640513010225 putative substrate translocation pore; other site 640513010226 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 640513010227 hydroxyglutarate oxidase; Provisional; Region: PRK11728 640513010228 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 640513010229 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; COG3075 640513010230 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 640513010231 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 640513010232 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 640513010233 Cysteine-rich domain; Region: CCG; pfam02754 640513010234 Cysteine-rich domain; Region: CCG; pfam02754 640513010235 hypothetical protein; Provisional; Region: PRK03673 640513010236 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 640513010237 putative MPT binding site; other site 640513010238 Competence-damaged protein; Region: CinA; cl00666 640513010239 YfaZ precursor; Region: YfaZ; pfam07437 640513010240 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 640513010241 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 640513010242 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 640513010243 acyl-activating enzyme (AAE) consensus motif; other site 640513010244 putative AMP binding site [chemical binding]; other site 640513010245 putative active site [active] 640513010246 putative CoA binding site [chemical binding]; other site 640513010247 O-succinylbenzoate synthase; Provisional; Region: PRK05105 640513010248 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 640513010249 active site 640513010250 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 640513010251 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 640513010252 substrate binding site [chemical binding]; other site 640513010253 oxyanion hole (OAH) forming residues; other site 640513010254 trimer interface [polypeptide binding]; other site 640513010255 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 640513010256 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 640513010257 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 640513010258 dimer interface [polypeptide binding]; other site 640513010259 tetramer interface [polypeptide binding]; other site 640513010260 PYR/PP interface [polypeptide binding]; other site 640513010261 TPP binding site [chemical binding]; other site 640513010262 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 640513010263 TPP-binding site; other site 640513010264 menaquinone-specific isochorismate synthase; Provisional; Region: PRK15012 640513010265 chorismate binding enzyme; Region: Chorismate_bind; cl10555 640513010266 hypothetical protein; Provisional; Region: PRK10404 640513010267 putative acyltransferase; Provisional; Region: PRK10314 640513010268 Coenzyme A binding pocket [chemical binding]; other site 640513010269 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 640513010270 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 640513010271 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 640513010272 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 640513010273 active site 640513010274 phosphorylation site [posttranslational modification] 640513010275 intermolecular recognition site; other site 640513010276 dimerization interface [polypeptide binding]; other site 640513010277 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 640513010278 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 640513010279 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 640513010280 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 640513010281 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 640513010282 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 640513010283 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 640513010284 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 640513010285 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 640513010286 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 640513010287 4Fe-4S binding domain; Region: Fer4; pfam00037 640513010288 4Fe-4S binding domain; Region: Fer4; pfam00037 640513010289 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 640513010290 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 640513010291 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 640513010292 catalytic loop [active] 640513010293 iron binding site [ion binding]; other site 640513010294 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 640513010295 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 640513010296 [4Fe-4S] binding site [ion binding]; other site 640513010297 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 640513010298 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 640513010299 SLBB domain; Region: SLBB; pfam10531 640513010300 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 640513010301 NADH dehydrogenase subunit E; Validated; Region: PRK07539 640513010302 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 640513010303 putative dimer interface [polypeptide binding]; other site 640513010304 [2Fe-2S] cluster binding site [ion binding]; other site 640513010305 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 640513010306 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 640513010307 NADH dehydrogenase subunit D; Validated; Region: PRK06075 640513010308 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 640513010309 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 640513010310 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 640513010311 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513010312 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 640513010313 putative dimerization interface [polypeptide binding]; other site 640513010314 aminotransferase AlaT; Validated; Region: PRK09265 640513010315 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 640513010316 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513010317 homodimer interface [polypeptide binding]; other site 640513010318 catalytic residue [active] 640513010319 5'-nucleotidase; Provisional; Region: PRK03826 640513010320 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 640513010321 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 640513010322 TrkA-C domain; Region: TrkA_C; pfam02080 640513010323 TrkA-C domain; Region: TrkA_C; pfam02080 640513010324 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 640513010325 putative phosphatase; Provisional; Region: PRK11587 640513010326 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 640513010327 motif II; other site 640513010328 hypothetical protein; Validated; Region: PRK05445 640513010329 hypothetical protein; Provisional; Region: PRK01816 640513010330 propionate/acetate kinase; Provisional; Region: PRK12379 640513010331 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 640513010332 phosphate acetyltransferase; Reviewed; Region: PRK05632 640513010333 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 640513010334 DRTGG domain; Region: DRTGG; pfam07085 640513010335 phosphate acetyltransferase; Region: pta; TIGR00651 640513010336 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 640513010337 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 640513010338 PYR/PP interface [polypeptide binding]; other site 640513010339 dimer interface [polypeptide binding]; other site 640513010340 TPP binding site [chemical binding]; other site 640513010341 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640513010342 transketolase; Reviewed; Region: PRK05899 640513010343 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 640513010344 TPP-binding site [chemical binding]; other site 640513010345 dimer interface [polypeptide binding]; other site 640513010346 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK12996 640513010347 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 640513010348 active site 640513010349 P-loop; other site 640513010350 phosphorylation site [posttranslational modification] 640513010351 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 640513010352 active site 640513010353 phosphorylation site [posttranslational modification] 640513010354 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640513010355 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640513010356 DNA binding site [nucleotide binding] 640513010357 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 640513010358 putative dimerization interface [polypeptide binding]; other site 640513010359 putative ligand binding site [chemical binding]; other site 640513010360 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 640513010361 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_38; cd04697 640513010362 nudix motif; other site 640513010363 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 640513010364 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 640513010365 active site 640513010366 metal binding site [ion binding]; metal-binding site 640513010367 homotetramer interface [polypeptide binding]; other site 640513010368 glutathione S-transferase; Provisional; Region: PRK15113 640513010369 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 640513010370 C-terminal domain interface [polypeptide binding]; other site 640513010371 GSH binding site (G-site) [chemical binding]; other site 640513010372 dimer interface [polypeptide binding]; other site 640513010373 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 640513010374 N-terminal domain interface [polypeptide binding]; other site 640513010375 putative dimer interface [polypeptide binding]; other site 640513010376 putative substrate binding pocket (H-site) [chemical binding]; other site 640513010377 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 640513010378 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 640513010379 C-terminal domain interface [polypeptide binding]; other site 640513010380 GSH binding site (G-site) [chemical binding]; other site 640513010381 dimer interface [polypeptide binding]; other site 640513010382 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 640513010383 N-terminal domain interface [polypeptide binding]; other site 640513010384 putative dimer interface [polypeptide binding]; other site 640513010385 active site 640513010386 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 640513010387 homooctamer interface [polypeptide binding]; other site 640513010388 active site 640513010389 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 640513010390 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 640513010391 putative NAD(P) binding site [chemical binding]; other site 640513010392 putative active site [active] 640513010393 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 640513010394 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640513010395 Coenzyme A binding pocket [chemical binding]; other site 640513010396 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 640513010397 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640513010398 Walker A/P-loop; other site 640513010399 ATP binding site [chemical binding]; other site 640513010400 Q-loop/lid; other site 640513010401 ABC transporter signature motif; other site 640513010402 Walker B; other site 640513010403 D-loop; other site 640513010404 H-loop/switch region; other site 640513010405 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640513010406 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 640513010407 dimer interface [polypeptide binding]; other site 640513010408 conserved gate region; other site 640513010409 putative PBP binding loops; other site 640513010410 ABC-ATPase subunit interface; other site 640513010411 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640513010412 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 640513010413 dimer interface [polypeptide binding]; other site 640513010414 conserved gate region; other site 640513010415 putative PBP binding loops; other site 640513010416 ABC-ATPase subunit interface; other site 640513010417 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 640513010418 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 640513010419 substrate binding pocket [chemical binding]; other site 640513010420 membrane-bound complex binding site; other site 640513010421 hinge residues; other site 640513010422 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 640513010423 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 640513010424 substrate binding pocket [chemical binding]; other site 640513010425 membrane-bound complex binding site; other site 640513010426 hinge residues; other site 640513010427 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 640513010428 Flavoprotein; Region: Flavoprotein; pfam02441 640513010429 amidophosphoribosyltransferase; Provisional; Region: PRK09246 640513010430 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 640513010431 active site 640513010432 tetramer interface [polypeptide binding]; other site 640513010433 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640513010434 active site 640513010435 colicin V production protein; Provisional; Region: PRK10845 640513010436 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 640513010437 cell division protein DedD; Provisional; Region: PRK11633 640513010438 Sporulation related domain; Region: SPOR; pfam05036 640513010439 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 640513010440 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 640513010441 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 640513010442 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 640513010443 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 640513010444 hypothetical protein; Provisional; Region: PRK10847 640513010445 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 640513010446 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 640513010447 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 640513010448 dimerization interface 3.5A [polypeptide binding]; other site 640513010449 active site 640513010450 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 640513010451 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 640513010452 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 640513010453 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 640513010454 ligand binding site [chemical binding]; other site 640513010455 NAD binding site [chemical binding]; other site 640513010456 catalytic site [active] 640513010457 homodimer interface [polypeptide binding]; other site 640513010458 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 640513010459 putative transporter; Provisional; Region: PRK12382 640513010460 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 640513010461 putative substrate translocation pore; other site 640513010462 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 640513010463 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 640513010464 dimer interface [polypeptide binding]; other site 640513010465 active site 640513010466 Uncharacterized conserved protein [Function unknown]; Region: COG4121 640513010467 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 640513010468 YfcL protein; Region: YfcL; pfam08891 640513010469 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3101 640513010470 hypothetical protein; Provisional; Region: PRK10621 640513010471 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 640513010472 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 640513010473 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 640513010474 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 640513010475 Tetramer interface [polypeptide binding]; other site 640513010476 active site 640513010477 FMN-binding site [chemical binding]; other site 640513010478 hypothetical protein; Provisional; Region: PRK04946 640513010479 Smr domain; Region: Smr; pfam01713 640513010480 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 640513010481 catalytic core [active] 640513010482 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 640513010483 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 640513010484 substrate binding site [chemical binding]; other site 640513010485 oxyanion hole (OAH) forming residues; other site 640513010486 trimer interface [polypeptide binding]; other site 640513010487 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 640513010488 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640513010489 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 640513010490 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 640513010491 dimer interface [polypeptide binding]; other site 640513010492 active site 640513010493 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 640513010494 long-chain fatty acid outer membrane transporter; Provisional; Region: PRK10716 640513010495 ABC transporter outer membrane lipoprotein; Provisional; Region: PRK15091 640513010496 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 640513010497 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 640513010498 Domain of unknown function (DUF1833); Region: DUF1833; pfam08875 640513010499 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 640513010500 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 640513010501 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 640513010502 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 640513010503 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 640513010504 oligomerization interface [polypeptide binding]; other site 640513010505 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 640513010506 Phage capsid family; Region: Phage_capsid; pfam05065 640513010507 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 640513010508 Phage-related protein [Function unknown]; Region: COG4695 640513010509 Phage portal protein; Region: Phage_portal; pfam04860 640513010510 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 640513010511 GTP cyclohydrolase N terminal; Region: GTP_CH_N; pfam12471 640513010512 Phage terminase, small subunit; Region: Terminase_4; pfam05119 640513010513 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 640513010514 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 640513010515 active site 640513010516 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 640513010517 catalytic residues [active] 640513010518 Phage holin family (Lysis protein S); Region: Phage_holin_3; pfam05106 640513010519 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 640513010520 MT-A70; Region: MT-A70; cl01947 640513010521 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 640513010522 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 640513010523 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 640513010524 Toprim domain; Region: Toprim_3; pfam13362 640513010525 AAA domain; Region: AAA_22; pfam13401 640513010526 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 640513010527 ATP binding site [chemical binding]; other site 640513010528 putative Mg++ binding site [ion binding]; other site 640513010529 nucleotide binding region [chemical binding]; other site 640513010530 helicase superfamily c-terminal domain; Region: HELICc; smart00490 640513010531 ATP-binding site [chemical binding]; other site 640513010532 NUMOD4 motif; Region: NUMOD4; pfam07463 640513010533 DNA-binding transcriptional regulator DicC; Provisional; Region: PRK09744 640513010534 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 640513010535 non-specific DNA binding site [nucleotide binding]; other site 640513010536 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 640513010537 salt bridge; other site 640513010538 sequence-specific DNA binding site [nucleotide binding]; other site 640513010539 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 640513010540 Catalytic site [active] 640513010541 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 640513010542 synthetase active site [active] 640513010543 NTP binding site [chemical binding]; other site 640513010544 metal binding site [ion binding]; metal-binding site 640513010545 Uncharacterized conserved protein (DUF2303); Region: DUF2303; cl02338 640513010546 ParB-like nuclease domain; Region: ParB; smart00470 640513010547 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 640513010548 Active Sites [active] 640513010549 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 640513010550 active site 640513010551 catalytic site [active] 640513010552 substrate binding site [chemical binding]; other site 640513010553 integrase; Provisional; Region: PRK09692 640513010554 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 640513010555 active site 640513010556 Int/Topo IB signature motif; other site 640513010557 integrase; Provisional; Region: PRK09692 640513010558 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 640513010559 active site 640513010560 Int/Topo IB signature motif; other site 640513010561 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 640513010562 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 640513010563 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 640513010564 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 640513010565 active site 640513010566 metal binding site [ion binding]; metal-binding site 640513010567 interdomain interaction site; other site 640513010568 Superfamily II helicase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG5519 640513010569 Phage polarity suppression protein (Psu); Region: Psu; pfam07455 640513010570 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 640513010571 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 640513010572 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 640513010573 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 640513010574 putative acyl-acceptor binding pocket; other site 640513010575 aminotransferase; Validated; Region: PRK08175 640513010576 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 640513010577 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513010578 homodimer interface [polypeptide binding]; other site 640513010579 catalytic residue [active] 640513010580 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 640513010581 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 640513010582 GAF domain; Region: GAF; pfam01590 640513010583 Histidine kinase; Region: His_kinase; pfam06580 640513010584 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 640513010585 ATP binding site [chemical binding]; other site 640513010586 Mg2+ binding site [ion binding]; other site 640513010587 G-X-G motif; other site 640513010588 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 640513010589 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 640513010590 active site 640513010591 phosphorylation site [posttranslational modification] 640513010592 intermolecular recognition site; other site 640513010593 dimerization interface [polypeptide binding]; other site 640513010594 LytTr DNA-binding domain; Region: LytTR; pfam04397 640513010595 glucokinase; Provisional; Region: glk; PRK00292 640513010596 glucokinase, proteobacterial type; Region: glk; TIGR00749 640513010597 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 640513010598 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 640513010599 Cl- selectivity filter; other site 640513010600 Cl- binding residues [ion binding]; other site 640513010601 pore gating glutamate residue; other site 640513010602 dimer interface [polypeptide binding]; other site 640513010603 indolepyruvate decarboxylase, Erwinia family; Region: indolpyr_decarb; TIGR03393 640513010604 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 640513010605 dimer interface [polypeptide binding]; other site 640513010606 PYR/PP interface [polypeptide binding]; other site 640513010607 TPP binding site [chemical binding]; other site 640513010608 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640513010609 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 640513010610 TPP-binding site [chemical binding]; other site 640513010611 dimer interface [polypeptide binding]; other site 640513010612 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 640513010613 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640513010614 active site 640513010615 catalytic tetrad [active] 640513010616 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 640513010617 manganese transport protein MntH; Reviewed; Region: PRK00701 640513010618 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 640513010619 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 640513010620 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 640513010621 Nucleoside recognition; Region: Gate; pfam07670 640513010622 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 640513010623 MASE1; Region: MASE1; pfam05231 640513010624 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640513010625 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 640513010626 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; cd01948 640513010627 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 640513010628 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 640513010629 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 640513010630 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 640513010631 active site 640513010632 HIGH motif; other site 640513010633 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 640513010634 active site 640513010635 KMSKS motif; other site 640513010636 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 640513010637 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513010638 The C-terminal substrate binding domain of LysR-type transcriptional regulator XapR involved in xanthosine catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_XapR; cd08449 640513010639 putative dimerization interface [polypeptide binding]; other site 640513010640 putative substrate binding pocket [chemical binding]; other site 640513010641 nucleoside transporter; Region: 2A0110; TIGR00889 640513010642 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 640513010643 putative substrate translocation pore; other site 640513010644 purine nucleoside phosphorylase; Provisional; Region: PRK08202 640513010645 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513010646 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513010647 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 640513010648 putative dimerization interface [polypeptide binding]; other site 640513010649 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 640513010650 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 640513010651 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3530 640513010652 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 640513010653 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 640513010654 nucleotide binding pocket [chemical binding]; other site 640513010655 K-X-D-G motif; other site 640513010656 catalytic site [active] 640513010657 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 640513010658 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 640513010659 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 640513010660 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 640513010661 Dimer interface [polypeptide binding]; other site 640513010662 BRCT sequence motif; other site 640513010663 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 640513010664 cell division protein ZipA; Provisional; Region: PRK03427 640513010665 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cd00231 640513010666 FtsZ protein binding site [polypeptide binding]; other site 640513010667 putative sulfate transport protein CysZ; Validated; Region: PRK04949 640513010668 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 640513010669 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 640513010670 dimer interface [polypeptide binding]; other site 640513010671 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513010672 catalytic residue [active] 640513010673 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 640513010674 dimerization domain swap beta strand [polypeptide binding]; other site 640513010675 regulatory protein interface [polypeptide binding]; other site 640513010676 active site 640513010677 regulatory phosphorylation site [posttranslational modification]; other site 640513010678 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 640513010679 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 640513010680 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 640513010681 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 640513010682 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 640513010683 HPr interaction site; other site 640513010684 glycerol kinase (GK) interaction site [polypeptide binding]; other site 640513010685 active site 640513010686 phosphorylation site [posttranslational modification] 640513010687 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 640513010688 dimer interface [polypeptide binding]; other site 640513010689 pyridoxamine kinase; Validated; Region: PRK05756 640513010690 pyridoxal binding site [chemical binding]; other site 640513010691 ATP binding site [chemical binding]; other site 640513010692 cysteine synthase B; Region: cysM; TIGR01138 640513010693 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 640513010694 dimer interface [polypeptide binding]; other site 640513010695 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513010696 catalytic residue [active] 640513010697 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 640513010698 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 640513010699 Walker A/P-loop; other site 640513010700 ATP binding site [chemical binding]; other site 640513010701 Q-loop/lid; other site 640513010702 ABC transporter signature motif; other site 640513010703 Walker B; other site 640513010704 D-loop; other site 640513010705 H-loop/switch region; other site 640513010706 TOBE-like domain; Region: TOBE_3; pfam12857 640513010707 sulfate transport protein; Provisional; Region: cysT; CHL00187 640513010708 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 640513010709 dimer interface [polypeptide binding]; other site 640513010710 conserved gate region; other site 640513010711 putative PBP binding loops; other site 640513010712 ABC-ATPase subunit interface; other site 640513010713 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 640513010714 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 640513010715 dimer interface [polypeptide binding]; other site 640513010716 conserved gate region; other site 640513010717 putative PBP binding loops; other site 640513010718 ABC-ATPase subunit interface; other site 640513010719 thiosulfate transporter subunit; Provisional; Region: PRK10852 640513010720 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640513010721 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 640513010722 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 640513010723 Protein of unknown function (DUF1131); Region: DUF1131; pfam06572 640513010724 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 640513010725 putative acetyltransferase; Provisional; Region: PRK03624 640513010726 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640513010727 Coenzyme A binding pocket [chemical binding]; other site 640513010728 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 640513010729 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 640513010730 active site 640513010731 metal binding site [ion binding]; metal-binding site 640513010732 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 640513010733 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 640513010734 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 640513010735 Malic enzyme, N-terminal domain; Region: malic; pfam00390 640513010736 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 640513010737 putative NAD(P) binding site [chemical binding]; other site 640513010738 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 640513010739 transaldolase-like protein; Provisional; Region: PTZ00411 640513010740 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 640513010741 active site 640513010742 dimer interface [polypeptide binding]; other site 640513010743 catalytic residue [active] 640513010744 transketolase; Reviewed; Region: PRK12753 640513010745 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 640513010746 TPP-binding site [chemical binding]; other site 640513010747 dimer interface [polypeptide binding]; other site 640513010748 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 640513010749 PYR/PP interface [polypeptide binding]; other site 640513010750 dimer interface [polypeptide binding]; other site 640513010751 TPP binding site [chemical binding]; other site 640513010752 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640513010753 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 640513010754 dimer interface [polypeptide binding]; other site 640513010755 putative tRNA-binding site [nucleotide binding]; other site 640513010756 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 640513010757 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640513010758 DNA binding site [nucleotide binding] 640513010759 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 640513010760 putative dimerization interface [polypeptide binding]; other site 640513010761 putative ligand binding site [chemical binding]; other site 640513010762 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 640513010763 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 640513010764 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 640513010765 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 640513010766 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 640513010767 Domain of unknown function (DUF386); Region: DUF386; cl01047 640513010768 inner membrane transporter YjeM; Provisional; Region: PRK15238 640513010769 alpha-glucosidase; Provisional; Region: PRK10137 640513010770 Protein of unknown function, DUF608; Region: DUF608; pfam04685 640513010771 Trehalase; Region: Trehalase; cl17346 640513010772 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 640513010773 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 640513010774 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 640513010775 dimer interface [polypeptide binding]; other site 640513010776 ADP-ribose binding site [chemical binding]; other site 640513010777 active site 640513010778 nudix motif; other site 640513010779 metal binding site [ion binding]; metal-binding site 640513010780 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 640513010781 4Fe-4S binding domain; Region: Fer4; pfam00037 640513010782 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640513010783 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640513010784 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 640513010785 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 640513010786 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 640513010787 dimerization interface [polypeptide binding]; other site 640513010788 Histidine kinase; Region: HisKA_3; pfam07730 640513010789 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 640513010790 ATP binding site [chemical binding]; other site 640513010791 Mg2+ binding site [ion binding]; other site 640513010792 G-X-G motif; other site 640513010793 aminoglycoside/multidrug efflux system; Provisional; Region: PRK10555 640513010794 Protein export membrane protein; Region: SecD_SecF; cl14618 640513010795 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 640513010796 ArsC family; Region: ArsC; pfam03960 640513010797 putative catalytic residues [active] 640513010798 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 640513010799 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 640513010800 metal binding site [ion binding]; metal-binding site 640513010801 dimer interface [polypeptide binding]; other site 640513010802 hypothetical protein; Provisional; Region: PRK13664 640513010803 putative hydrolase; Provisional; Region: PRK11460 640513010804 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 640513010805 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 640513010806 Helicase; Region: Helicase_RecD; pfam05127 640513010807 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 640513010808 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 640513010809 Predicted metalloprotease [General function prediction only]; Region: COG2321 640513010810 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 640513010811 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 640513010812 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 640513010813 ATP binding site [chemical binding]; other site 640513010814 active site 640513010815 substrate binding site [chemical binding]; other site 640513010816 lipoprotein; Provisional; Region: PRK11679 640513010817 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 640513010818 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 640513010819 dihydrodipicolinate synthase; Region: dapA; TIGR00674 640513010820 dimer interface [polypeptide binding]; other site 640513010821 active site 640513010822 catalytic residue [active] 640513010823 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 640513010824 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 640513010825 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 640513010826 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 640513010827 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 640513010828 catalytic triad [active] 640513010829 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 640513010830 Domain of unknown function DUF20; Region: UPF0118; pfam01594 640513010831 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 640513010832 Peptidase family M48; Region: Peptidase_M48; cl12018 640513010833 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 640513010834 ArsC family; Region: ArsC; pfam03960 640513010835 catalytic residues [active] 640513010836 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 640513010837 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 640513010838 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 640513010839 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 640513010840 active site 640513010841 dimer interface [polypeptide binding]; other site 640513010842 catalytic nucleophile [active] 640513010843 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 640513010844 interface (dimer of trimers) [polypeptide binding]; other site 640513010845 Substrate-binding/catalytic site; other site 640513010846 Zn-binding sites [ion binding]; other site 640513010847 uracil transporter; Provisional; Region: PRK10720 640513010848 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640513010849 active site 640513010850 6-phospho-beta-glucosidase; Reviewed; Region: celA; PRK09589 640513010851 beta-galactosidase; Region: BGL; TIGR03356 640513010852 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 640513010853 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 640513010854 dimerization interface [polypeptide binding]; other site 640513010855 putative ATP binding site [chemical binding]; other site 640513010856 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 640513010857 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 640513010858 active site 640513010859 substrate binding site [chemical binding]; other site 640513010860 cosubstrate binding site; other site 640513010861 catalytic site [active] 640513010862 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 640513010863 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 640513010864 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 640513010865 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 640513010866 domain interface [polypeptide binding]; other site 640513010867 active site 640513010868 catalytic site [active] 640513010869 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 640513010870 domain interface [polypeptide binding]; other site 640513010871 active site 640513010872 catalytic site [active] 640513010873 exopolyphosphatase; Provisional; Region: PRK10854 640513010874 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 640513010875 nucleotide binding site [chemical binding]; other site 640513010876 MASE1; Region: MASE1; pfam05231 640513010877 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 640513010878 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640513010879 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; cd01948 640513010880 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513010881 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513010882 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 640513010883 dimerization interface [polypeptide binding]; other site 640513010884 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640513010885 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 640513010886 putative substrate translocation pore; other site 640513010887 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640513010888 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 640513010889 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 640513010890 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640513010891 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 640513010892 substrate binding site [chemical binding]; other site 640513010893 ATP binding site [chemical binding]; other site 640513010894 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 640513010895 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 640513010896 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640513010897 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640513010898 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640513010899 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 640513010900 TM-ABC transporter signature motif; other site 640513010901 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640513010902 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640513010903 Walker A/P-loop; other site 640513010904 ATP binding site [chemical binding]; other site 640513010905 Q-loop/lid; other site 640513010906 ABC transporter signature motif; other site 640513010907 Walker B; other site 640513010908 D-loop; other site 640513010909 H-loop/switch region; other site 640513010910 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640513010911 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 640513010912 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 640513010913 ligand binding site [chemical binding]; other site 640513010914 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640513010915 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640513010916 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 640513010917 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 640513010918 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640513010919 PYR/PP interface [polypeptide binding]; other site 640513010920 dimer interface [polypeptide binding]; other site 640513010921 TPP binding site [chemical binding]; other site 640513010922 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640513010923 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 640513010924 TPP-binding site; other site 640513010925 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 640513010926 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 640513010927 tetrameric interface [polypeptide binding]; other site 640513010928 NAD binding site [chemical binding]; other site 640513010929 catalytic residues [active] 640513010930 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640513010931 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640513010932 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 640513010933 putative active site [active] 640513010934 GMP synthase; Reviewed; Region: guaA; PRK00074 640513010935 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 640513010936 AMP/PPi binding site [chemical binding]; other site 640513010937 candidate oxyanion hole; other site 640513010938 catalytic triad [active] 640513010939 potential glutamine specificity residues [chemical binding]; other site 640513010940 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 640513010941 ATP Binding subdomain [chemical binding]; other site 640513010942 Ligand Binding sites [chemical binding]; other site 640513010943 Dimerization subdomain; other site 640513010944 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 640513010945 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 640513010946 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 640513010947 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 640513010948 active site 640513010949 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 640513010950 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 640513010951 generic binding surface II; other site 640513010952 generic binding surface I; other site 640513010953 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 640513010954 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640513010955 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640513010956 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 640513010957 putative substrate translocation pore; other site 640513010958 POT family; Region: PTR2; cl17359 640513010959 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 640513010960 Protein of unknown function (DUF796); Region: DUF796; cl01226 640513010961 GTP-binding protein Der; Reviewed; Region: PRK00093 640513010962 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 640513010963 G1 box; other site 640513010964 GTP/Mg2+ binding site [chemical binding]; other site 640513010965 Switch I region; other site 640513010966 G2 box; other site 640513010967 Switch II region; other site 640513010968 G3 box; other site 640513010969 G4 box; other site 640513010970 G5 box; other site 640513010971 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 640513010972 G1 box; other site 640513010973 GTP/Mg2+ binding site [chemical binding]; other site 640513010974 Switch I region; other site 640513010975 G2 box; other site 640513010976 G3 box; other site 640513010977 Switch II region; other site 640513010978 G4 box; other site 640513010979 G5 box; other site 640513010980 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 640513010981 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 640513010982 Trp docking motif [polypeptide binding]; other site 640513010983 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 640513010984 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 640513010985 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 640513010986 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 640513010987 dimer interface [polypeptide binding]; other site 640513010988 motif 1; other site 640513010989 active site 640513010990 motif 2; other site 640513010991 motif 3; other site 640513010992 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 640513010993 anticodon binding site; other site 640513010994 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 640513010995 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 640513010996 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 640513010997 cytoskeletal protein RodZ; Provisional; Region: PRK10856 640513010998 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 640513010999 non-specific DNA binding site [nucleotide binding]; other site 640513011000 salt bridge; other site 640513011001 sequence-specific DNA binding site [nucleotide binding]; other site 640513011002 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 640513011003 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 640513011004 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 640513011005 FeS/SAM binding site; other site 640513011006 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 640513011007 active site 640513011008 multimer interface [polypeptide binding]; other site 640513011009 penicillin-binding protein 1C; Provisional; Region: PRK11240 640513011010 Transglycosylase; Region: Transgly; pfam00912 640513011011 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 640513011012 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 640513011013 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 640513011014 MG2 domain; Region: A2M_N; pfam01835 640513011015 Alpha-2-macroglobulin family; Region: A2M; pfam00207 640513011016 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 640513011017 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 640513011018 surface patch; other site 640513011019 thioester region; other site 640513011020 specificity defining residues; other site 640513011021 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 640513011022 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 640513011023 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 640513011024 active site turn [active] 640513011025 phosphorylation site [posttranslational modification] 640513011026 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 640513011027 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 640513011028 NAD binding site [chemical binding]; other site 640513011029 sugar binding site [chemical binding]; other site 640513011030 divalent metal binding site [ion binding]; other site 640513011031 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 640513011032 dimer interface [polypeptide binding]; other site 640513011033 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 640513011034 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 640513011035 active site residue [active] 640513011036 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 640513011037 active site residue [active] 640513011038 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640513011039 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640513011040 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 640513011041 putative active site [active] 640513011042 enhanced serine sensitivity protein SseB; Provisional; Region: PRK11611 640513011043 aminopeptidase B; Provisional; Region: PRK05015 640513011044 Peptidase; Region: DUF3663; pfam12404 640513011045 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 640513011046 interface (dimer of trimers) [polypeptide binding]; other site 640513011047 Substrate-binding/catalytic site; other site 640513011048 Zn-binding sites [ion binding]; other site 640513011049 hypothetical protein; Provisional; Region: PRK10721 640513011050 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 640513011051 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 640513011052 catalytic loop [active] 640513011053 iron binding site [ion binding]; other site 640513011054 chaperone protein HscA; Provisional; Region: hscA; PRK05183 640513011055 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 640513011056 nucleotide binding site [chemical binding]; other site 640513011057 putative NEF/HSP70 interaction site [polypeptide binding]; other site 640513011058 SBD interface [polypeptide binding]; other site 640513011059 co-chaperone HscB; Provisional; Region: hscB; PRK05014 640513011060 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 640513011061 HSP70 interaction site [polypeptide binding]; other site 640513011062 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 640513011063 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 640513011064 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 640513011065 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 640513011066 trimerization site [polypeptide binding]; other site 640513011067 active site 640513011068 cysteine desulfurase; Provisional; Region: PRK14012 640513011069 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 640513011070 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640513011071 catalytic residue [active] 640513011072 DNA-binding transcriptional regulator IscR; Provisional; Region: PRK10857 640513011073 Rrf2 family protein; Region: rrf2_super; TIGR00738 640513011074 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 640513011075 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 640513011076 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 640513011077 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 640513011078 active site 640513011079 dimerization interface [polypeptide binding]; other site 640513011080 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 640513011081 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG3683 640513011082 stationary phase inducible protein CsiE; Provisional; Region: PRK11564 640513011083 PRD domain; Region: PRD; pfam00874 640513011084 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 640513011085 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 640513011086 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 640513011087 putative substrate translocation pore; other site 640513011088 Predicted membrane protein [Function unknown]; Region: COG2259 640513011089 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 640513011090 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 640513011091 dimer interface [polypeptide binding]; other site 640513011092 active site 640513011093 glycine-pyridoxal phosphate binding site [chemical binding]; other site 640513011094 folate binding site [chemical binding]; other site 640513011095 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 640513011096 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 640513011097 heme-binding site [chemical binding]; other site 640513011098 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 640513011099 FAD binding pocket [chemical binding]; other site 640513011100 FAD binding motif [chemical binding]; other site 640513011101 phosphate binding motif [ion binding]; other site 640513011102 beta-alpha-beta structure motif; other site 640513011103 NAD binding pocket [chemical binding]; other site 640513011104 Heme binding pocket [chemical binding]; other site 640513011105 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 640513011106 Nitrogen regulatory protein P-II; Region: P-II; smart00938 640513011107 response regulator GlrR; Provisional; Region: PRK15115 640513011108 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 640513011109 active site 640513011110 phosphorylation site [posttranslational modification] 640513011111 intermolecular recognition site; other site 640513011112 dimerization interface [polypeptide binding]; other site 640513011113 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 640513011114 Walker A motif; other site 640513011115 ATP binding site [chemical binding]; other site 640513011116 Walker B motif; other site 640513011117 arginine finger; other site 640513011118 hypothetical protein; Provisional; Region: PRK10722 640513011119 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 640513011120 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 640513011121 dimer interface [polypeptide binding]; other site 640513011122 phosphorylation site [posttranslational modification] 640513011123 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 640513011124 ATP binding site [chemical binding]; other site 640513011125 Mg2+ binding site [ion binding]; other site 640513011126 G-X-G motif; other site 640513011127 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 640513011128 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 640513011129 dimerization interface [polypeptide binding]; other site 640513011130 ATP binding site [chemical binding]; other site 640513011131 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 640513011132 dimerization interface [polypeptide binding]; other site 640513011133 ATP binding site [chemical binding]; other site 640513011134 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 640513011135 putative active site [active] 640513011136 catalytic triad [active] 640513011137 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 640513011138 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 640513011139 substrate binding pocket [chemical binding]; other site 640513011140 membrane-bound complex binding site; other site 640513011141 hinge residues; other site 640513011142 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 640513011143 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640513011144 catalytic residue [active] 640513011145 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 640513011146 nucleoside/Zn binding site; other site 640513011147 dimer interface [polypeptide binding]; other site 640513011148 catalytic motif [active] 640513011149 hypothetical protein; Provisional; Region: PRK11590 640513011150 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 640513011151 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 640513011152 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 640513011153 active site turn [active] 640513011154 phosphorylation site [posttranslational modification] 640513011155 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 640513011156 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 640513011157 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 640513011158 putative active site [active] 640513011159 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640513011160 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 640513011161 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 640513011162 putative active site [active] 640513011163 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 640513011164 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 640513011165 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 640513011166 active site 640513011167 hydrophilic channel; other site 640513011168 dimerization interface [polypeptide binding]; other site 640513011169 catalytic residues [active] 640513011170 active site lid [active] 640513011171 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 640513011172 Recombination protein O N terminal; Region: RecO_N; pfam11967 640513011173 Recombination protein O C terminal; Region: RecO_C; pfam02565 640513011174 GTPase Era; Reviewed; Region: era; PRK00089 640513011175 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 640513011176 G1 box; other site 640513011177 GTP/Mg2+ binding site [chemical binding]; other site 640513011178 Switch I region; other site 640513011179 G2 box; other site 640513011180 Switch II region; other site 640513011181 G3 box; other site 640513011182 G4 box; other site 640513011183 G5 box; other site 640513011184 KH domain; Region: KH_2; pfam07650 640513011185 ribonuclease III; Reviewed; Region: rnc; PRK00102 640513011186 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 640513011187 dimerization interface [polypeptide binding]; other site 640513011188 active site 640513011189 metal binding site [ion binding]; metal-binding site 640513011190 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 640513011191 dsRNA binding site [nucleotide binding]; other site 640513011192 signal peptidase I; Provisional; Region: PRK10861 640513011193 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 640513011194 Catalytic site [active] 640513011195 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 640513011196 GTP-binding protein LepA; Provisional; Region: PRK05433 640513011197 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 640513011198 G1 box; other site 640513011199 putative GEF interaction site [polypeptide binding]; other site 640513011200 GTP/Mg2+ binding site [chemical binding]; other site 640513011201 Switch I region; other site 640513011202 G2 box; other site 640513011203 G3 box; other site 640513011204 Switch II region; other site 640513011205 G4 box; other site 640513011206 G5 box; other site 640513011207 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 640513011208 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 640513011209 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 640513011210 SoxR reducing system protein RseC; Provisional; Region: PRK10862 640513011211 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 640513011212 anti-sigma E factor; Provisional; Region: rseB; PRK09455 640513011213 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 640513011214 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 640513011215 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 640513011216 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 640513011217 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640513011218 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 640513011219 DNA binding residues [nucleotide binding] 640513011220 L-aspartate oxidase; Provisional; Region: PRK09077 640513011221 L-aspartate oxidase; Provisional; Region: PRK06175 640513011222 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 640513011223 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 640513011224 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 640513011225 ATP binding site [chemical binding]; other site 640513011226 Mg++ binding site [ion binding]; other site 640513011227 motif III; other site 640513011228 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 640513011229 nucleotide binding region [chemical binding]; other site 640513011230 ATP-binding site [chemical binding]; other site 640513011231 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 640513011232 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 640513011233 ligand binding site [chemical binding]; other site 640513011234 active site 640513011235 UGI interface [polypeptide binding]; other site 640513011236 catalytic site [active] 640513011237 putative methyltransferase; Provisional; Region: PRK10864 640513011238 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 640513011239 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 640513011240 thioredoxin 2; Provisional; Region: PRK10996 640513011241 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 640513011242 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 640513011243 catalytic residues [active] 640513011244 Uncharacterized conserved protein [Function unknown]; Region: COG3148 640513011245 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 640513011246 CoA binding domain; Region: CoA_binding_2; pfam13380 640513011247 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 640513011248 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 640513011249 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 640513011250 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 640513011251 domain interface [polypeptide binding]; other site 640513011252 putative active site [active] 640513011253 catalytic site [active] 640513011254 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 640513011255 domain interface [polypeptide binding]; other site 640513011256 putative active site [active] 640513011257 catalytic site [active] 640513011258 lipoprotein; Provisional; Region: PRK10759 640513011259 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 640513011260 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 640513011261 putative substrate translocation pore; other site 640513011262 protein disaggregation chaperone; Provisional; Region: PRK10865 640513011263 Clp amino terminal domain; Region: Clp_N; pfam02861 640513011264 Clp amino terminal domain; Region: Clp_N; pfam02861 640513011265 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 640513011266 Walker A motif; other site 640513011267 ATP binding site [chemical binding]; other site 640513011268 Walker B motif; other site 640513011269 arginine finger; other site 640513011270 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 640513011271 Walker A motif; other site 640513011272 ATP binding site [chemical binding]; other site 640513011273 Walker B motif; other site 640513011274 arginine finger; other site 640513011275 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 640513011276 hypothetical protein; Provisional; Region: PRK10723 640513011277 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 640513011278 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 640513011279 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 640513011280 RNA binding surface [nucleotide binding]; other site 640513011281 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 640513011282 active site 640513011283 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 640513011284 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 640513011285 30S subunit binding site; other site 640513011286 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 640513011287 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 640513011288 Prephenate dehydratase; Region: PDT; pfam00800 640513011289 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 640513011290 putative L-Phe binding site [chemical binding]; other site 640513011291 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 640513011292 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 640513011293 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 640513011294 prephenate dehydrogenase; Validated; Region: PRK08507 640513011295 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 640513011296 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 640513011297 lipoprotein; Provisional; Region: PRK11443 640513011298 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 640513011299 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 640513011300 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 640513011301 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 640513011302 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640513011303 metal binding site [ion binding]; metal-binding site 640513011304 active site 640513011305 I-site; other site 640513011306 putative outer membrane lipoprotein; Provisional; Region: PRK09967 640513011307 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 640513011308 ligand binding site [chemical binding]; other site 640513011309 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 640513011310 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 640513011311 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 640513011312 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 640513011313 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 640513011314 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 640513011315 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 640513011316 RimM N-terminal domain; Region: RimM; pfam01782 640513011317 PRC-barrel domain; Region: PRC; pfam05239 640513011318 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 640513011319 signal recognition particle protein; Provisional; Region: PRK10867 640513011320 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 640513011321 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 640513011322 P loop; other site 640513011323 GTP binding site [chemical binding]; other site 640513011324 Signal peptide binding domain; Region: SRP_SPB; pfam02978 640513011325 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 640513011326 hypothetical protein; Provisional; Region: PRK11573 640513011327 Domain of unknown function DUF21; Region: DUF21; pfam01595 640513011328 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 640513011329 Transporter associated domain; Region: CorC_HlyC; smart01091 640513011330 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 640513011331 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 640513011332 dimer interface [polypeptide binding]; other site 640513011333 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 640513011334 recombination and repair protein; Provisional; Region: PRK10869 640513011335 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 640513011336 Walker A/P-loop; other site 640513011337 ATP binding site [chemical binding]; other site 640513011338 Q-loop/lid; other site 640513011339 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 640513011340 ABC transporter signature motif; other site 640513011341 Walker B; other site 640513011342 D-loop; other site 640513011343 H-loop/switch region; other site 640513011344 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 640513011345 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 640513011346 hypothetical protein; Validated; Region: PRK01777 640513011347 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 640513011348 putative coenzyme Q binding site [chemical binding]; other site 640513011349 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 640513011350 SmpB-tmRNA interface; other site 640513011351 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 640513011352 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 640513011353 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640513011354 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 640513011355 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 640513011356 active site 640513011357 motif I; other site 640513011358 motif II; other site 640513011359 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 640513011360 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 640513011361 Ligand Binding Site [chemical binding]; other site 640513011362 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 640513011363 HlyD family secretion protein; Region: HlyD_3; pfam13437 640513011364 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 640513011365 Protein export membrane protein; Region: SecD_SecF; cl14618 640513011366 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 640513011367 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 640513011368 rhamnulose-1-phosphate aldolase; Provisional; Region: PRK03634 640513011369 intersubunit interface [polypeptide binding]; other site 640513011370 active site 640513011371 Zn2+ binding site [ion binding]; other site 640513011372 CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast; Region: CUB; cl00049 640513011373 YceI-like domain; Region: YceI; pfam04264 640513011374 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 640513011375 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640513011376 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 640513011377 DNA binding residues [nucleotide binding] 640513011378 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 640513011379 binding surface 640513011380 TPR motif; other site 640513011381 Tetratricopeptide repeat; Region: TPR_16; pfam13432 640513011382 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640513011383 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640513011384 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640513011385 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640513011386 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640513011387 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640513011388 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640513011389 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640513011390 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 640513011391 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 640513011392 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 640513011393 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 640513011394 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 640513011395 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513011396 Walker A/P-loop; other site 640513011397 ATP binding site [chemical binding]; other site 640513011398 Q-loop/lid; other site 640513011399 ABC transporter signature motif; other site 640513011400 Walker B; other site 640513011401 D-loop; other site 640513011402 H-loop/switch region; other site 640513011403 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 640513011404 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640513011405 HlyD family secretion protein; Region: HlyD_3; pfam13437 640513011406 nucleoside triphosphatase NudI; Provisional; Region: PRK15472 640513011407 Fimbrial protein; Region: Fimbrial; pfam00419 640513011408 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 640513011409 PapC N-terminal domain; Region: PapC_N; pfam13954 640513011410 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 640513011411 PapC C-terminal domain; Region: PapC_C; pfam13953 640513011412 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 640513011413 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 640513011414 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 640513011415 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 640513011416 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640513011417 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 640513011418 DNA binding residues [nucleotide binding] 640513011419 dimerization interface [polypeptide binding]; other site 640513011420 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 640513011421 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 640513011422 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513011423 homodimer interface [polypeptide binding]; other site 640513011424 catalytic residue [active] 640513011425 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 640513011426 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 640513011427 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 640513011428 RTX toxin acyltransferase family; Region: HlyC; pfam02794 640513011429 haemagglutination activity domain; Region: Haemagg_act; pfam05860 640513011430 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 640513011431 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 640513011432 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 640513011433 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513011434 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513011435 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 640513011436 dimerization interface [polypeptide binding]; other site 640513011437 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 640513011438 putative NAD(P) binding site [chemical binding]; other site 640513011439 homodimer interface [polypeptide binding]; other site 640513011440 putative deaminase; Validated; Region: PRK06846 640513011441 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 640513011442 active site 640513011443 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 640513011444 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 640513011445 putative substrate binding site [chemical binding]; other site 640513011446 nucleotide binding site [chemical binding]; other site 640513011447 nucleotide binding site [chemical binding]; other site 640513011448 homodimer interface [polypeptide binding]; other site 640513011449 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 640513011450 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 640513011451 CoA binding domain; Region: CoA_binding; pfam02629 640513011452 CoA-ligase; Region: Ligase_CoA; pfam00549 640513011453 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 640513011454 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 640513011455 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 640513011456 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 640513011457 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513011458 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 640513011459 dimerization interface [polypeptide binding]; other site 640513011460 Uncharacterized homolog of Blt101 [Function unknown]; Region: COG0401 640513011461 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 640513011462 dimerization interface [polypeptide binding]; other site 640513011463 putative DNA binding site [nucleotide binding]; other site 640513011464 putative Zn2+ binding site [ion binding]; other site 640513011465 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; cl00125 640513011466 active site residue [active] 640513011467 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 640513011468 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 640513011469 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 640513011470 hypothetical protein; Provisional; Region: PRK10556 640513011471 hypothetical protein; Provisional; Region: PRK10132 640513011472 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 640513011473 catalytic residues [active] 640513011474 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 640513011475 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 640513011476 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 640513011477 Class I ribonucleotide reductase; Region: RNR_I; cd01679 640513011478 active site 640513011479 dimer interface [polypeptide binding]; other site 640513011480 catalytic residues [active] 640513011481 effector binding site; other site 640513011482 R2 peptide binding site; other site 640513011483 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 640513011484 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 640513011485 dimer interface [polypeptide binding]; other site 640513011486 putative radical transfer pathway; other site 640513011487 diiron center [ion binding]; other site 640513011488 tyrosyl radical; other site 640513011489 glycine betaine transporter ATP-binding subunit; Provisional; Region: PRK10070 640513011490 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 640513011491 Walker A/P-loop; other site 640513011492 ATP binding site [chemical binding]; other site 640513011493 Q-loop/lid; other site 640513011494 ABC transporter signature motif; other site 640513011495 Walker B; other site 640513011496 D-loop; other site 640513011497 H-loop/switch region; other site 640513011498 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 640513011499 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 640513011500 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 640513011501 dimer interface [polypeptide binding]; other site 640513011502 conserved gate region; other site 640513011503 putative PBP binding loops; other site 640513011504 ABC-ATPase subunit interface; other site 640513011505 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 640513011506 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 640513011507 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 640513011508 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 640513011509 transcriptional repressor MprA; Provisional; Region: PRK10870 640513011510 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640513011511 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 640513011512 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640513011513 HlyD family secretion protein; Region: HlyD_3; pfam13437 640513011514 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 640513011515 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 640513011516 putative substrate translocation pore; other site 640513011517 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 640513011518 2-isopropylmalate synthase; Validated; Region: PRK03739 640513011519 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 640513011520 active site 640513011521 catalytic residues [active] 640513011522 metal binding site [ion binding]; metal-binding site 640513011523 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 640513011524 Cupin domain; Region: Cupin_2; pfam07883 640513011525 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513011526 Helix-turn-helix domain; Region: HTH_18; pfam12833 640513011527 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513011528 S-ribosylhomocysteinase; Provisional; Region: PRK02260 640513011529 glutamate--cysteine ligase; Provisional; Region: PRK02107 640513011530 Predicted membrane protein [Function unknown]; Region: COG1238 640513011531 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 640513011532 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 640513011533 motif II; other site 640513011534 carbon storage regulator; Provisional; Region: PRK01712 640513011535 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 640513011536 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 640513011537 motif 1; other site 640513011538 active site 640513011539 motif 2; other site 640513011540 motif 3; other site 640513011541 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 640513011542 DHHA1 domain; Region: DHHA1; pfam02272 640513011543 recombination regulator RecX; Reviewed; Region: recX; PRK00117 640513011544 recombinase A; Provisional; Region: recA; PRK09354 640513011545 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 640513011546 hexamer interface [polypeptide binding]; other site 640513011547 Walker A motif; other site 640513011548 ATP binding site [chemical binding]; other site 640513011549 Walker B motif; other site 640513011550 hypothetical protein; Validated; Region: PRK03661 640513011551 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 640513011552 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 640513011553 metal binding site [ion binding]; metal-binding site 640513011554 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 640513011555 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; cl00462 640513011556 ABC-ATPase subunit interface; other site 640513011557 dimer interface [polypeptide binding]; other site 640513011558 putative PBP binding regions; other site 640513011559 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 640513011560 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 640513011561 Transglycosylase SLT domain; Region: SLT_2; pfam13406 640513011562 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 640513011563 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640513011564 catalytic residue [active] 640513011565 PTS system enzyme II sorbitol-specific factor; Region: EII-GUT; cl01515 640513011566 PTS system, glucitol/sorbitol-specific, IIBC component; Region: EIIBC-GUT; TIGR00825 640513011567 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 640513011568 Nucleoside recognition; Region: Gate; pfam07670 640513011569 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 640513011570 PTS system glucitol/sorbitol-specific transporter subunit IIA; Provisional; Region: PRK10377 640513011571 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 640513011572 Sorbitol 6-phosphate dehydrogenase (SDH), classical (c) SDRs; Region: SDH_SDR_c_like; cd05322 640513011573 putative NAD(P) binding site [chemical binding]; other site 640513011574 active site 640513011575 DNA-binding transcriptional activator GutM; Provisional; Region: PRK10234 640513011576 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 640513011577 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 640513011578 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640513011579 D-arabinose 5-phosphate isomerase; Provisional; Region: gutQ; PRK11543 640513011580 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 640513011581 putative active site [active] 640513011582 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 640513011583 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 640513011584 GAF domain; Region: GAF; pfam01590 640513011585 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 640513011586 Walker A motif; other site 640513011587 ATP binding site [chemical binding]; other site 640513011588 Walker B motif; other site 640513011589 arginine finger; other site 640513011590 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 640513011591 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 640513011592 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 640513011593 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 640513011594 iron binding site [ion binding]; other site 640513011595 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 640513011596 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640513011597 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640513011598 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 640513011599 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 640513011600 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 640513011601 active site turn [active] 640513011602 phosphorylation site [posttranslational modification] 640513011603 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 640513011604 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 640513011605 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 640513011606 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 640513011607 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 640513011608 Acylphosphatase; Region: Acylphosphatase; pfam00708 640513011609 HypF finger; Region: zf-HYPF; pfam07503 640513011610 HypF finger; Region: zf-HYPF; pfam07503 640513011611 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 640513011612 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 640513011613 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 640513011614 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640513011615 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640513011616 DNA binding site [nucleotide binding] 640513011617 domain linker motif; other site 640513011618 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 640513011619 dimerization interface (closed form) [polypeptide binding]; other site 640513011620 ligand binding site [chemical binding]; other site 640513011621 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional; Region: PRK09796 640513011622 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 640513011623 active site turn [active] 640513011624 phosphorylation site [posttranslational modification] 640513011625 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 640513011626 cryptic 6-phospho-beta-glucosidase; Provisional; Region: PRK09852 640513011627 beta-galactosidase; Region: BGL; TIGR03356 640513011628 Endopeptidases belonging to membrane-bound hydrogen evolving hydrogenase group. In hydrogenase 3 from E coli, the maturation of the large subunit (HycE) requires the cleavage of a C-terminal peptide by the endopeptidase HycI, before the final formation...; Region: H2MP_MemB-H2evol; cd06067 640513011629 nickel binding site [ion binding]; other site 640513011630 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 640513011631 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 640513011632 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 640513011633 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 640513011634 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 640513011635 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 640513011636 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 640513011637 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 640513011638 NADH dehydrogenase; Region: NADHdh; cl00469 640513011639 formate hydrogenlyase subunit 3; Reviewed; Region: PRK08042 640513011640 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 640513011641 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 640513011642 formate hydrogenlyase regulatory protein HycA; Provisional; Region: PRK10198 640513011643 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 640513011644 hydrogenase nickel incorporation protein; Validated; Region: hypA; PRK03681 640513011645 hydrogenase nickel incorporation protein HypB; Provisional; Region: PRK10463 640513011646 hydrogenase assembly chaperone; Provisional; Region: PRK10409 640513011647 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 640513011648 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 640513011649 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 640513011650 dimerization interface [polypeptide binding]; other site 640513011651 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 640513011652 ATP binding site [chemical binding]; other site 640513011653 formate hydrogenlyase transcriptional activator FhlA; Provisional; Region: PRK15429 640513011654 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 640513011655 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 640513011656 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 640513011657 Walker A motif; other site 640513011658 ATP binding site [chemical binding]; other site 640513011659 Walker B motif; other site 640513011660 arginine finger; other site 640513011661 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 640513011662 molybdenum-pterin binding domain; Region: Mop; TIGR00638 640513011663 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 640513011664 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 640513011665 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 640513011666 intersubunit interface [polypeptide binding]; other site 640513011667 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 640513011668 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 640513011669 dimer interface [polypeptide binding]; other site 640513011670 putative PBP binding regions; other site 640513011671 ABC-ATPase subunit interface; other site 640513011672 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 640513011673 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 640513011674 Walker A/P-loop; other site 640513011675 ATP binding site [chemical binding]; other site 640513011676 Q-loop/lid; other site 640513011677 ABC transporter signature motif; other site 640513011678 Walker B; other site 640513011679 D-loop; other site 640513011680 H-loop/switch region; other site 640513011681 Major Facilitator Superfamily; Region: MFS_1; pfam07690 640513011682 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 640513011683 putative substrate translocation pore; other site 640513011684 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 640513011685 Toxin SymE, type I toxin-antitoxin system; Region: SymE_toxin; pfam08845 640513011686 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 640513011687 MutS domain I; Region: MutS_I; pfam01624 640513011688 MutS domain II; Region: MutS_II; pfam05188 640513011689 MutS domain III; Region: MutS_III; pfam05192 640513011690 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 640513011691 Walker A/P-loop; other site 640513011692 ATP binding site [chemical binding]; other site 640513011693 Q-loop/lid; other site 640513011694 ABC transporter signature motif; other site 640513011695 Walker B; other site 640513011696 D-loop; other site 640513011697 H-loop/switch region; other site 640513011698 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 640513011699 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 640513011700 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 640513011701 Flavoprotein; Region: Flavoprotein; pfam02441 640513011702 MarR family; Region: MarR_2; cl17246 640513011703 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 640513011704 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 640513011705 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 640513011706 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640513011707 Peptidase family M23; Region: Peptidase_M23; pfam01551 640513011708 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 640513011709 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 640513011710 S-adenosylmethionine binding site [chemical binding]; other site 640513011711 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 640513011712 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 640513011713 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 640513011714 Permutation of conserved domain; other site 640513011715 active site 640513011716 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 640513011717 homotrimer interaction site [polypeptide binding]; other site 640513011718 zinc binding site [ion binding]; other site 640513011719 CDP-binding sites; other site 640513011720 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 640513011721 substrate binding site; other site 640513011722 dimer interface; other site 640513011723 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 640513011724 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 640513011725 Protein of unknown function (DUF3561); Region: DUF3561; pfam12084 640513011726 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 640513011727 ligand-binding site [chemical binding]; other site 640513011728 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 640513011729 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 640513011730 CysD dimerization site [polypeptide binding]; other site 640513011731 G1 box; other site 640513011732 putative GEF interaction site [polypeptide binding]; other site 640513011733 GTP/Mg2+ binding site [chemical binding]; other site 640513011734 Switch I region; other site 640513011735 G2 box; other site 640513011736 G3 box; other site 640513011737 Switch II region; other site 640513011738 G4 box; other site 640513011739 G5 box; other site 640513011740 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 640513011741 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 640513011742 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 640513011743 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 640513011744 Active Sites [active] 640513011745 siroheme synthase; Provisional; Region: cysG; PRK10637 640513011746 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 640513011747 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 640513011748 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 640513011749 active site 640513011750 SAM binding site [chemical binding]; other site 640513011751 homodimer interface [polypeptide binding]; other site 640513011752 alkaline phosphatase isozyme conversion aminopeptidase; Provisional; Region: PRK10199 640513011753 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 640513011754 metal binding site [ion binding]; metal-binding site 640513011755 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 640513011756 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 640513011757 Active Sites [active] 640513011758 sulfite reductase subunit beta; Provisional; Region: PRK13504 640513011759 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640513011760 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640513011761 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 640513011762 Flavodoxin; Region: Flavodoxin_1; pfam00258 640513011763 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 640513011764 FAD binding pocket [chemical binding]; other site 640513011765 FAD binding motif [chemical binding]; other site 640513011766 catalytic residues [active] 640513011767 NAD binding pocket [chemical binding]; other site 640513011768 phosphate binding motif [ion binding]; other site 640513011769 beta-alpha-beta structure motif; other site 640513011770 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 640513011771 active site 640513011772 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 640513011773 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 640513011774 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640513011775 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 640513011776 NAD(P) binding site [chemical binding]; other site 640513011777 active site 640513011778 enolase; Provisional; Region: eno; PRK00077 640513011779 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 640513011780 dimer interface [polypeptide binding]; other site 640513011781 metal binding site [ion binding]; metal-binding site 640513011782 substrate binding pocket [chemical binding]; other site 640513011783 CTP synthetase; Validated; Region: pyrG; PRK05380 640513011784 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 640513011785 Catalytic site [active] 640513011786 active site 640513011787 UTP binding site [chemical binding]; other site 640513011788 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 640513011789 active site 640513011790 putative oxyanion hole; other site 640513011791 catalytic triad [active] 640513011792 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 640513011793 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 640513011794 homodimer interface [polypeptide binding]; other site 640513011795 metal binding site [ion binding]; metal-binding site 640513011796 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 640513011797 homodimer interface [polypeptide binding]; other site 640513011798 active site 640513011799 putative chemical substrate binding site [chemical binding]; other site 640513011800 metal binding site [ion binding]; metal-binding site 640513011801 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 640513011802 HD domain; Region: HD_4; pfam13328 640513011803 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 640513011804 synthetase active site [active] 640513011805 NTP binding site [chemical binding]; other site 640513011806 metal binding site [ion binding]; metal-binding site 640513011807 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 640513011808 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 640513011809 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 640513011810 TRAM domain; Region: TRAM; pfam01938 640513011811 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 640513011812 S-adenosylmethionine binding site [chemical binding]; other site 640513011813 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 640513011814 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 640513011815 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 640513011816 dimerization interface [polypeptide binding]; other site 640513011817 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 640513011818 dimer interface [polypeptide binding]; other site 640513011819 phosphorylation site [posttranslational modification] 640513011820 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 640513011821 ATP binding site [chemical binding]; other site 640513011822 Mg2+ binding site [ion binding]; other site 640513011823 G-X-G motif; other site 640513011824 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 640513011825 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 640513011826 active site 640513011827 phosphorylation site [posttranslational modification] 640513011828 intermolecular recognition site; other site 640513011829 dimerization interface [polypeptide binding]; other site 640513011830 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 640513011831 putative binding surface; other site 640513011832 active site 640513011833 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 640513011834 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 640513011835 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 640513011836 active site 640513011837 tetramer interface [polypeptide binding]; other site 640513011838 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 640513011839 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 640513011840 active site 640513011841 tetramer interface [polypeptide binding]; other site 640513011842 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 640513011843 D-galactonate transporter; Region: 2A0114; TIGR00893 640513011844 putative substrate translocation pore; other site 640513011845 flavodoxin; Provisional; Region: PRK08105 640513011846 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 640513011847 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 640513011848 probable active site [active] 640513011849 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3098 640513011850 SecY interacting protein Syd; Provisional; Region: PRK04968 640513011851 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 640513011852 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 640513011853 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 640513011854 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 640513011855 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 640513011856 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 640513011857 serine transporter; Region: stp; TIGR00814 640513011858 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 640513011859 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 640513011860 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 640513011861 flap endonuclease-like protein; Provisional; Region: PRK09482 640513011862 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 640513011863 active site 640513011864 metal binding site 1 [ion binding]; metal-binding site 640513011865 putative 5' ssDNA interaction site; other site 640513011866 metal binding site 3; metal-binding site 640513011867 metal binding site 2 [ion binding]; metal-binding site 640513011868 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 640513011869 putative DNA binding site [nucleotide binding]; other site 640513011870 putative metal binding site [ion binding]; other site 640513011871 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 640513011872 FtsJ-like methyltransferase; Region: FtsJ; cl17430 640513011873 hypothetical protein; Provisional; Region: PRK10873 640513011874 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 640513011875 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513011876 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 640513011877 dimerization interface [polypeptide binding]; other site 640513011878 substrate binding pocket [chemical binding]; other site 640513011879 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 640513011880 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 640513011881 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 640513011882 catalytic residue [active] 640513011883 Fe-S metabolism associated domain; Region: SufE; cl00951 640513011884 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 640513011885 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 640513011886 putative ATP binding site [chemical binding]; other site 640513011887 putative substrate interface [chemical binding]; other site 640513011888 murein transglycosylase A; Provisional; Region: mltA; PRK11162 640513011889 MltA specific insert domain; Region: MltA; pfam03562 640513011890 3D domain; Region: 3D; pfam06725 640513011891 AMIN domain; Region: AMIN; pfam11741 640513011892 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 640513011893 active site 640513011894 metal binding site [ion binding]; metal-binding site 640513011895 N-acetylglutamate synthase; Validated; Region: PRK05279 640513011896 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 640513011897 putative feedback inhibition sensing region; other site 640513011898 putative nucleotide binding site [chemical binding]; other site 640513011899 putative substrate binding site [chemical binding]; other site 640513011900 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640513011901 Coenzyme A binding pocket [chemical binding]; other site 640513011902 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 640513011903 AAA domain; Region: AAA_30; pfam13604 640513011904 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12294 640513011905 Family description; Region: UvrD_C_2; pfam13538 640513011906 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 640513011907 protease3; Provisional; Region: PRK15101 640513011908 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 640513011909 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 640513011910 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 640513011911 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 640513011912 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 640513011913 hypothetical protein; Provisional; Region: PRK10332 640513011914 Prepilin peptidase dependent protein C term (DUF3728); Region: DUF3728; pfam12528 640513011915 hypothetical protein; Provisional; Region: PRK11521 640513011916 hypothetical protein; Provisional; Region: PRK10557 640513011917 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 640513011918 hypothetical protein; Provisional; Region: PRK10506 640513011919 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 640513011920 thymidylate synthase; Reviewed; Region: thyA; PRK01827 640513011921 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 640513011922 dimerization interface [polypeptide binding]; other site 640513011923 active site 640513011924 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 640513011925 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 640513011926 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 640513011927 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 640513011928 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 640513011929 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 640513011930 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 640513011931 putative active site [active] 640513011932 Ap4A binding site [chemical binding]; other site 640513011933 nudix motif; other site 640513011934 putative metal binding site [ion binding]; other site 640513011935 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 640513011936 putative DNA-binding cleft [nucleotide binding]; other site 640513011937 putative DNA clevage site; other site 640513011938 molecular lever; other site 640513011939 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 640513011940 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 640513011941 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640513011942 active site 640513011943 catalytic tetrad [active] 640513011944 lysophospholipid transporter LplT; Provisional; Region: PRK11195 640513011945 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 640513011946 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 640513011947 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 640513011948 putative acyl-acceptor binding pocket; other site 640513011949 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 640513011950 acyl-activating enzyme (AAE) consensus motif; other site 640513011951 putative AMP binding site [chemical binding]; other site 640513011952 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 640513011953 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640513011954 DNA binding site [nucleotide binding] 640513011955 domain linker motif; other site 640513011956 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 640513011957 dimerization interface (closed form) [polypeptide binding]; other site 640513011958 ligand binding site [chemical binding]; other site 640513011959 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640513011960 Coenzyme A binding pocket [chemical binding]; other site 640513011961 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 640513011962 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640513011963 DNA-binding site [nucleotide binding]; DNA binding site 640513011964 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640513011965 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 640513011966 beta-galactosidase; Region: BGL; TIGR03356 640513011967 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 640513011968 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 640513011969 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640513011970 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640513011971 DNA binding site [nucleotide binding] 640513011972 domain linker motif; other site 640513011973 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 640513011974 dimerization interface (closed form) [polypeptide binding]; other site 640513011975 ligand binding site [chemical binding]; other site 640513011976 diaminopimelate decarboxylase; Provisional; Region: PRK11165 640513011977 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 640513011978 active site 640513011979 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640513011980 substrate binding site [chemical binding]; other site 640513011981 catalytic residues [active] 640513011982 dimer interface [polypeptide binding]; other site 640513011983 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 640513011984 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513011985 The C-terminal substrate binding domain of LysR, transcriptional regulator for lysine biosynthesis, contains the type 2 periplasmic binding fold; Region: PBP2_LysR; cd08456 640513011986 putative dimerization interface [polypeptide binding]; other site 640513011987 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 640513011988 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640513011989 DoxX; Region: DoxX; pfam07681 640513011990 Predicted transcriptional regulators [Transcription]; Region: COG1733 640513011991 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 640513011992 dimerization interface [polypeptide binding]; other site 640513011993 putative DNA binding site [nucleotide binding]; other site 640513011994 putative Zn2+ binding site [ion binding]; other site 640513011995 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 640513011996 aspartate racemase; Region: asp_race; TIGR00035 640513011997 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 640513011998 LPS O-antigen length regulator; Provisional; Region: PRK10381 640513011999 Chain length determinant protein; Region: Wzz; pfam02706 640513012000 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 640513012001 dimer interface [polypeptide binding]; other site 640513012002 conserved gate region; other site 640513012003 putative PBP binding loops; other site 640513012004 ABC-ATPase subunit interface; other site 640513012005 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640513012006 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 640513012007 dimer interface [polypeptide binding]; other site 640513012008 conserved gate region; other site 640513012009 putative PBP binding loops; other site 640513012010 ABC-ATPase subunit interface; other site 640513012011 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 640513012012 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 640513012013 Walker A/P-loop; other site 640513012014 ATP binding site [chemical binding]; other site 640513012015 Q-loop/lid; other site 640513012016 ABC transporter signature motif; other site 640513012017 Walker B; other site 640513012018 D-loop; other site 640513012019 H-loop/switch region; other site 640513012020 TOBE domain; Region: TOBE; pfam03459 640513012021 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640513012022 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 640513012023 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 640513012024 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 640513012025 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 640513012026 putative substrate translocation pore; other site 640513012027 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 640513012028 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 640513012029 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 640513012030 NADP binding site [chemical binding]; other site 640513012031 homodimer interface [polypeptide binding]; other site 640513012032 active site 640513012033 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 640513012034 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 640513012035 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 640513012036 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 640513012037 putative acyltransferase; Provisional; Region: PRK05790 640513012038 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 640513012039 dimer interface [polypeptide binding]; other site 640513012040 active site 640513012041 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513012042 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513012043 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 640513012044 dimerization interface [polypeptide binding]; other site 640513012045 Predicted membrane protein [Function unknown]; Region: COG4125 640513012046 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 640513012047 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 640513012048 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 640513012049 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 640513012050 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640513012051 Coenzyme A binding pocket [chemical binding]; other site 640513012052 Uncharacterized conserved protein [Function unknown]; Region: COG3592 640513012053 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 640513012054 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 640513012055 putative active site [active] 640513012056 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 640513012057 ATP binding site [chemical binding]; other site 640513012058 Mg2+ binding site [ion binding]; other site 640513012059 G-X-G motif; other site 640513012060 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 640513012061 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 640513012062 active site 640513012063 phosphorylation site [posttranslational modification] 640513012064 intermolecular recognition site; other site 640513012065 dimerization interface [polypeptide binding]; other site 640513012066 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 640513012067 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 640513012068 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 640513012069 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 640513012070 dimer interface [polypeptide binding]; other site 640513012071 conserved gate region; other site 640513012072 ABC-ATPase subunit interface; other site 640513012073 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 640513012074 dimer interface [polypeptide binding]; other site 640513012075 conserved gate region; other site 640513012076 putative PBP binding loops; other site 640513012077 ABC-ATPase subunit interface; other site 640513012078 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 640513012079 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513012080 Walker A/P-loop; other site 640513012081 ATP binding site [chemical binding]; other site 640513012082 Q-loop/lid; other site 640513012083 ABC transporter signature motif; other site 640513012084 Walker B; other site 640513012085 D-loop; other site 640513012086 H-loop/switch region; other site 640513012087 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 640513012088 Peptidase family M23; Region: Peptidase_M23; pfam01551 640513012089 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 640513012090 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 640513012091 Flavoprotein; Region: Flavoprotein; pfam02441 640513012092 Protein of unknown function (DUF554); Region: DUF554; pfam04474 640513012093 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 640513012094 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 640513012095 active site 640513012096 metal binding site [ion binding]; metal-binding site 640513012097 nudix motif; other site 640513012098 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 640513012099 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 640513012100 dimer interface [polypeptide binding]; other site 640513012101 putative anticodon binding site; other site 640513012102 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 640513012103 motif 1; other site 640513012104 active site 640513012105 motif 2; other site 640513012106 motif 3; other site 640513012107 peptide chain release factor 2; Validated; Region: prfB; PRK00578 640513012108 This domain is found in peptide chain release factors; Region: PCRF; smart00937 640513012109 RF-1 domain; Region: RF-1; pfam00472 640513012110 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 640513012111 DHH family; Region: DHH; pfam01368 640513012112 DHHA1 domain; Region: DHHA1; pfam02272 640513012113 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 640513012114 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 640513012115 dimerization domain [polypeptide binding]; other site 640513012116 dimer interface [polypeptide binding]; other site 640513012117 catalytic residues [active] 640513012118 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 640513012119 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 640513012120 active site 640513012121 Int/Topo IB signature motif; other site 640513012122 flavodoxin FldB; Provisional; Region: PRK12359 640513012123 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 640513012124 hypothetical protein; Provisional; Region: PRK10878 640513012125 putative global regulator; Reviewed; Region: PRK09559 640513012126 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 640513012127 hemolysin; Provisional; Region: PRK15087 640513012128 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 640513012129 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. 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 function as...; Region: ASCH_yqfb_like; cd06552 640513012130 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640513012131 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640513012132 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 640513012133 putative active site [active] 640513012134 6-phospho-beta-glucosidase BglA; Provisional; Region: PRK15014 640513012135 beta-galactosidase; Region: BGL; TIGR03356 640513012136 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 640513012137 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 640513012138 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 640513012139 DsbD alpha interface [polypeptide binding]; other site 640513012140 catalytic residues [active] 640513012141 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 640513012142 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 640513012143 catalytic residues [active] 640513012144 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 640513012145 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640513012146 catalytic residues [active] 640513012147 putative NAD(P)-binding oxidoreductase; Provisional; Region: PRK09730 640513012148 classical (c) SDRs; Region: SDR_c; cd05233 640513012149 NAD(P) binding site [chemical binding]; other site 640513012150 active site 640513012151 glycine dehydrogenase; Provisional; Region: PRK05367 640513012152 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 640513012153 tetramer interface [polypeptide binding]; other site 640513012154 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513012155 catalytic residue [active] 640513012156 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 640513012157 tetramer interface [polypeptide binding]; other site 640513012158 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513012159 catalytic residue [active] 640513012160 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 640513012161 lipoyl attachment site [posttranslational modification]; other site 640513012162 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 640513012163 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 640513012164 oxidoreductase; Provisional; Region: PRK08013 640513012165 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 640513012166 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 640513012167 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 640513012168 proline aminopeptidase P II; Provisional; Region: PRK10879 640513012169 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 640513012170 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 640513012171 active site 640513012172 hypothetical protein; Reviewed; Region: PRK01736 640513012173 Z-ring-associated protein; Provisional; Region: PRK10972 640513012174 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 640513012175 5-formyltetrahydrofolate cyclo-ligase family protein; Provisional; Region: PRK10333 640513012176 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 640513012177 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 640513012178 ligand binding site [chemical binding]; other site 640513012179 NAD binding site [chemical binding]; other site 640513012180 tetramer interface [polypeptide binding]; other site 640513012181 catalytic site [active] 640513012182 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 640513012183 L-serine binding site [chemical binding]; other site 640513012184 ACT domain interface; other site 640513012185 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 640513012186 tetramer (dimer of dimers) interface [polypeptide binding]; other site 640513012187 active site 640513012188 dimer interface [polypeptide binding]; other site 640513012189 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 640513012190 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513012191 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 640513012192 putative dimerization interface [polypeptide binding]; other site 640513012193 Uncharacterized conserved protein [Function unknown]; Region: COG2968 640513012194 oxidative stress defense protein; Provisional; Region: PRK11087 640513012195 arginine exporter protein; Provisional; Region: PRK09304 640513012196 mechanosensitive channel MscS; Provisional; Region: PRK10334 640513012197 Mechanosensitive ion channel; Region: MS_channel; pfam00924 640513012198 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 640513012199 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 640513012200 active site 640513012201 intersubunit interface [polypeptide binding]; other site 640513012202 zinc binding site [ion binding]; other site 640513012203 Na+ binding site [ion binding]; other site 640513012204 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 640513012205 Phosphoglycerate kinase; Region: PGK; pfam00162 640513012206 substrate binding site [chemical binding]; other site 640513012207 hinge regions; other site 640513012208 ADP binding site [chemical binding]; other site 640513012209 catalytic site [active] 640513012210 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 640513012211 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 640513012212 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 640513012213 transketolase; Reviewed; Region: PRK12753 640513012214 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 640513012215 TPP-binding site [chemical binding]; other site 640513012216 dimer interface [polypeptide binding]; other site 640513012217 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 640513012218 PYR/PP interface [polypeptide binding]; other site 640513012219 dimer interface [polypeptide binding]; other site 640513012220 TPP binding site [chemical binding]; other site 640513012221 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 640513012222 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 640513012223 outer membrane porin, OprD family; Region: OprD; pfam03573 640513012224 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 640513012225 agmatinase; Region: agmatinase; TIGR01230 640513012226 oligomer interface [polypeptide binding]; other site 640513012227 putative active site [active] 640513012228 Mn binding site [ion binding]; other site 640513012229 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 640513012230 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 640513012231 dimer interface [polypeptide binding]; other site 640513012232 active site 640513012233 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640513012234 catalytic residues [active] 640513012235 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 640513012236 Virulence promoting factor; Region: YqgB; pfam11036 640513012237 S-adenosylmethionine synthetase; Validated; Region: PRK05250 640513012238 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 640513012239 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 640513012240 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 640513012241 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 640513012242 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 640513012243 putative substrate translocation pore; other site 640513012244 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 640513012245 hypothetical protein; Provisional; Region: PRK04860 640513012246 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 640513012247 DNA-specific endonuclease I; Provisional; Region: PRK15137 640513012248 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 640513012249 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 640513012250 RNA methyltransferase, RsmE family; Region: TIGR00046 640513012251 glutathione synthetase; Provisional; Region: PRK05246 640513012252 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 640513012253 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 640513012254 hypothetical protein; Validated; Region: PRK00228 640513012255 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 640513012256 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 640513012257 Transcriptional regulator [Transcription]; Region: IclR; COG1414 640513012258 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 640513012259 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 640513012260 Walker A motif; other site 640513012261 ATP binding site [chemical binding]; other site 640513012262 Walker B motif; other site 640513012263 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 640513012264 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 640513012265 catalytic residue [active] 640513012266 YGGT family; Region: YGGT; pfam02325 640513012267 Predicted integral membrane protein [Function unknown]; Region: COG0762 640513012268 hypothetical protein; Validated; Region: PRK05090 640513012269 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 640513012270 active site 640513012271 dimerization interface [polypeptide binding]; other site 640513012272 HemN family oxidoreductase; Provisional; Region: PRK05660 640513012273 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 640513012274 FeS/SAM binding site; other site 640513012275 HemN C-terminal domain; Region: HemN_C; pfam06969 640513012276 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 640513012277 putative active site [active] 640513012278 hypothetical protein; Provisional; Region: PRK10626 640513012279 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 640513012280 hypothetical protein; Provisional; Region: PRK11702 640513012281 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 640513012282 adenine DNA glycosylase; Provisional; Region: PRK10880 640513012283 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 640513012284 minor groove reading motif; other site 640513012285 helix-hairpin-helix signature motif; other site 640513012286 substrate binding pocket [chemical binding]; other site 640513012287 active site 640513012288 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 640513012289 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 640513012290 DNA binding and oxoG recognition site [nucleotide binding] 640513012291 oxidative damage protection protein; Provisional; Region: PRK05408 640513012292 murein transglycosylase C; Provisional; Region: mltC; PRK11671 640513012293 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 640513012294 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 640513012295 N-acetyl-D-glucosamine binding site [chemical binding]; other site 640513012296 catalytic residue [active] 640513012297 nucleoside transporter; Region: 2A0110; TIGR00889 640513012298 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 640513012299 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; pfam03802 640513012300 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 640513012301 Coenzyme A transferase; Region: CoA_trans; cl17247 640513012302 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 640513012303 citrate lyase subunit gamma; Provisional; Region: PRK13253 640513012304 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 640513012305 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 640513012306 putative active site [active] 640513012307 (T/H)XGH motif; other site 640513012308 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 640513012309 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 640513012310 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 640513012311 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 640513012312 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 640513012313 putative active site [active] 640513012314 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 640513012315 ATP binding site [chemical binding]; other site 640513012316 Mg2+ binding site [ion binding]; other site 640513012317 G-X-G motif; other site 640513012318 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 640513012319 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 640513012320 active site 640513012321 phosphorylation site [posttranslational modification] 640513012322 intermolecular recognition site; other site 640513012323 dimerization interface [polypeptide binding]; other site 640513012324 Transcriptional regulator; Region: CitT; pfam12431 640513012325 ornithine decarboxylase; Provisional; Region: PRK13578 640513012326 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 640513012327 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 640513012328 homodimer interface [polypeptide binding]; other site 640513012329 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513012330 catalytic residue [active] 640513012331 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 640513012332 Protein of unknown function (DUF554); Region: DUF554; pfam04474 640513012333 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 640513012334 Autotransporter beta-domain; Region: Autotransporter; pfam03797 640513012335 RNA polymerase sigma factor; Provisional; Region: PRK12512 640513012336 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 640513012337 DNA binding residues [nucleotide binding] 640513012338 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 640513012339 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 640513012340 DsbD alpha interface [polypeptide binding]; other site 640513012341 catalytic residues [active] 640513012342 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 640513012343 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 640513012344 catalytic triad [active] 640513012345 bifunctional glutathionylspermidine amidase/glutathionylspermidine synthetase; Provisional; Region: PRK10507 640513012346 CHAP domain; Region: CHAP; pfam05257 640513012347 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 640513012348 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 640513012349 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 640513012350 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 640513012351 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640513012352 Walker A/P-loop; other site 640513012353 ATP binding site [chemical binding]; other site 640513012354 Q-loop/lid; other site 640513012355 ABC transporter signature motif; other site 640513012356 Walker B; other site 640513012357 D-loop; other site 640513012358 H-loop/switch region; other site 640513012359 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 640513012360 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 640513012361 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 640513012362 Walker A/P-loop; other site 640513012363 ATP binding site [chemical binding]; other site 640513012364 Q-loop/lid; other site 640513012365 ABC transporter signature motif; other site 640513012366 Walker B; other site 640513012367 D-loop; other site 640513012368 H-loop/switch region; other site 640513012369 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 640513012370 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 640513012371 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 640513012372 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 640513012373 dimer interface [polypeptide binding]; other site 640513012374 conserved gate region; other site 640513012375 putative PBP binding loops; other site 640513012376 ABC-ATPase subunit interface; other site 640513012377 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 640513012378 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 640513012379 dimer interface [polypeptide binding]; other site 640513012380 conserved gate region; other site 640513012381 putative PBP binding loops; other site 640513012382 ABC-ATPase subunit interface; other site 640513012383 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 640513012384 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 640513012385 putative S-transferase; Provisional; Region: PRK11752 640513012386 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 640513012387 C-terminal domain interface [polypeptide binding]; other site 640513012388 GSH binding site (G-site) [chemical binding]; other site 640513012389 dimer interface [polypeptide binding]; other site 640513012390 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 640513012391 dimer interface [polypeptide binding]; other site 640513012392 N-terminal domain interface [polypeptide binding]; other site 640513012393 active site 640513012394 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640513012395 molybdate ABC transporter periplasmic molybdate-binding protein; Provisional; Region: PRK03537 640513012396 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 640513012397 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 640513012398 putative ligand binding residues [chemical binding]; other site 640513012399 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 640513012400 PAS fold; Region: PAS_3; pfam08447 640513012401 putative active site [active] 640513012402 heme pocket [chemical binding]; other site 640513012403 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640513012404 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640513012405 metal binding site [ion binding]; metal-binding site 640513012406 active site 640513012407 I-site; other site 640513012408 DNA-binding transcriptional activator FucR; Provisional; Region: PRK10411 640513012409 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 640513012410 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640513012411 Protein of unknown function (DUF2623); Region: DUF2623; pfam11115 640513012412 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 640513012413 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 640513012414 dimerization interface [polypeptide binding]; other site 640513012415 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640513012416 dimer interface [polypeptide binding]; other site 640513012417 putative CheW interface [polypeptide binding]; other site 640513012418 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 640513012419 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 640513012420 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 640513012421 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640513012422 active site 640513012423 catalytic tetrad [active] 640513012424 hypothetical protein; Provisional; Region: PRK05208 640513012425 biopolymer transport protein ExbD; Provisional; Region: PRK11267 640513012426 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 640513012427 biopolymer transport protein ExbB; Provisional; Region: PRK10414 640513012428 cystathionine beta-lyase; Provisional; Region: PRK08114 640513012429 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 640513012430 homodimer interface [polypeptide binding]; other site 640513012431 substrate-cofactor binding pocket; other site 640513012432 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513012433 catalytic residue [active] 640513012434 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 640513012435 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 640513012436 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 640513012437 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513012438 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640513012439 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513012440 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 640513012441 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 640513012442 dimer interface [polypeptide binding]; other site 640513012443 active site 640513012444 metal binding site [ion binding]; metal-binding site 640513012445 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 640513012446 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 640513012447 active site 640513012448 catalytic tetrad [active] 640513012449 hypothetical protein; Provisional; Region: PRK01254 640513012450 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 640513012451 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 640513012452 FtsI repressor; Provisional; Region: PRK10883 640513012453 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 640513012454 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 640513012455 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 640513012456 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 640513012457 putative acyl-acceptor binding pocket; other site 640513012458 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 640513012459 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 640513012460 CAP-like domain; other site 640513012461 active site 640513012462 primary dimer interface [polypeptide binding]; other site 640513012463 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 640513012464 Periplasmic protein with OB-fold [Function unknown]; Region: COG3111 640513012465 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 640513012466 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 640513012467 active site 640513012468 phosphorylation site [posttranslational modification] 640513012469 intermolecular recognition site; other site 640513012470 dimerization interface [polypeptide binding]; other site 640513012471 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 640513012472 DNA binding site [nucleotide binding] 640513012473 sensor protein QseC; Provisional; Region: PRK10337 640513012474 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 640513012475 dimer interface [polypeptide binding]; other site 640513012476 phosphorylation site [posttranslational modification] 640513012477 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 640513012478 ATP binding site [chemical binding]; other site 640513012479 Mg2+ binding site [ion binding]; other site 640513012480 G-X-G motif; other site 640513012481 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 640513012482 Uncharacterized conserved protein [Function unknown]; Region: COG1359 640513012483 galactoside permease; Reviewed; Region: lacY; PRK09528 640513012484 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 640513012485 putative substrate translocation pore; other site 640513012486 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; pfam10022 640513012487 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640513012488 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513012489 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640513012490 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513012491 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 640513012492 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 640513012493 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 640513012494 putative active site [active] 640513012495 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 640513012496 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 640513012497 siderophore binding site; other site 640513012498 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 640513012499 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 640513012500 ABC-ATPase subunit interface; other site 640513012501 dimer interface [polypeptide binding]; other site 640513012502 putative PBP binding regions; other site 640513012503 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 640513012504 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 640513012505 ABC-ATPase subunit interface; other site 640513012506 dimer interface [polypeptide binding]; other site 640513012507 putative PBP binding regions; other site 640513012508 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 640513012509 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 640513012510 Walker A/P-loop; other site 640513012511 ATP binding site [chemical binding]; other site 640513012512 Q-loop/lid; other site 640513012513 ABC transporter signature motif; other site 640513012514 Walker B; other site 640513012515 D-loop; other site 640513012516 H-loop/switch region; other site 640513012517 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 640513012518 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 640513012519 N-terminal plug; other site 640513012520 ligand-binding site [chemical binding]; other site 640513012521 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 640513012522 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 640513012523 PAAR motif; Region: PAAR_motif; pfam05488 640513012524 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 640513012525 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 640513012526 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 640513012527 ATP binding site [chemical binding]; other site 640513012528 Mg2+ binding site [ion binding]; other site 640513012529 G-X-G motif; other site 640513012530 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 640513012531 anchoring element; other site 640513012532 dimer interface [polypeptide binding]; other site 640513012533 ATP binding site [chemical binding]; other site 640513012534 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 640513012535 active site 640513012536 metal binding site [ion binding]; metal-binding site 640513012537 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 640513012538 esterase YqiA; Provisional; Region: PRK11071 640513012539 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 640513012540 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 640513012541 active site 640513012542 metal binding site [ion binding]; metal-binding site 640513012543 hexamer interface [polypeptide binding]; other site 640513012544 putative dehydrogenase; Provisional; Region: PRK11039 640513012545 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 640513012546 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 640513012547 dimer interface [polypeptide binding]; other site 640513012548 ADP-ribose binding site [chemical binding]; other site 640513012549 active site 640513012550 nudix motif; other site 640513012551 metal binding site [ion binding]; metal-binding site 640513012552 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 640513012553 hypothetical protein; Provisional; Region: PRK11653 640513012554 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 640513012555 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 640513012556 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 640513012557 putative active site [active] 640513012558 metal binding site [ion binding]; metal-binding site 640513012559 zinc transporter ZupT; Provisional; Region: PRK04201 640513012560 ZIP Zinc transporter; Region: Zip; pfam02535 640513012561 Fimbrial protein; Region: Fimbrial; cl01416 640513012562 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 640513012563 PapC N-terminal domain; Region: PapC_N; pfam13954 640513012564 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 640513012565 PapC C-terminal domain; Region: PapC_C; pfam13953 640513012566 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 640513012567 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 640513012568 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 640513012569 Fimbrial protein; Region: Fimbrial; pfam00419 640513012570 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 640513012571 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 640513012572 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 640513012573 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 640513012574 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 640513012575 putative ribose interaction site [chemical binding]; other site 640513012576 putative ADP binding site [chemical binding]; other site 640513012577 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 640513012578 active site 640513012579 nucleotide binding site [chemical binding]; other site 640513012580 HIGH motif; other site 640513012581 KMSKS motif; other site 640513012582 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 640513012583 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 640513012584 metal binding triad; other site 640513012585 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 640513012586 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 640513012587 metal binding triad; other site 640513012588 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 640513012589 Uncharacterized conserved protein [Function unknown]; Region: COG3025 640513012590 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 640513012591 putative active site [active] 640513012592 putative metal binding residues [ion binding]; other site 640513012593 signature motif; other site 640513012594 putative triphosphate binding site [ion binding]; other site 640513012595 CHAD domain; Region: CHAD; pfam05235 640513012596 SH3 domain-containing protein; Provisional; Region: PRK10884 640513012597 Bacterial SH3 domain homologues; Region: SH3b; smart00287 640513012598 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 640513012599 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 640513012600 active site 640513012601 NTP binding site [chemical binding]; other site 640513012602 metal binding triad [ion binding]; metal-binding site 640513012603 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 640513012604 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 640513012605 Zn2+ binding site [ion binding]; other site 640513012606 Mg2+ binding site [ion binding]; other site 640513012607 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 640513012608 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 640513012609 homooctamer interface [polypeptide binding]; other site 640513012610 active site 640513012611 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 640513012612 benzoate transport; Region: 2A0115; TIGR00895 640513012613 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 640513012614 putative substrate translocation pore; other site 640513012615 UreD urease accessory protein; Region: UreD; cl00530 640513012616 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 640513012617 alpha-gamma subunit interface [polypeptide binding]; other site 640513012618 beta-gamma subunit interface [polypeptide binding]; other site 640513012619 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 640513012620 gamma-beta subunit interface [polypeptide binding]; other site 640513012621 alpha-beta subunit interface [polypeptide binding]; other site 640513012622 urease subunit alpha; Reviewed; Region: ureC; PRK13207 640513012623 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 640513012624 subunit interactions [polypeptide binding]; other site 640513012625 active site 640513012626 flap region; other site 640513012627 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 640513012628 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 640513012629 dimer interface [polypeptide binding]; other site 640513012630 catalytic residues [active] 640513012631 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 640513012632 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 640513012633 UreF; Region: UreF; pfam01730 640513012634 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 640513012635 UGMP family protein; Validated; Region: PRK09604 640513012636 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 640513012637 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 640513012638 DNA primase; Validated; Region: dnaG; PRK05667 640513012639 CHC2 zinc finger; Region: zf-CHC2; pfam01807 640513012640 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 640513012641 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 640513012642 active site 640513012643 metal binding site [ion binding]; metal-binding site 640513012644 interdomain interaction site; other site 640513012645 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 640513012646 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 640513012647 Uncharacterized conserved protein [Function unknown]; Region: COG3391 640513012648 putative outer membrane receptor; Provisional; Region: PRK13513 640513012649 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 640513012650 N-terminal plug; other site 640513012651 ligand-binding site [chemical binding]; other site 640513012652 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 640513012653 active site 640513012654 SUMO-1 interface [polypeptide binding]; other site 640513012655 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 640513012656 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; cl02542 640513012657 HSP70 interaction site [polypeptide binding]; other site 640513012658 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 640513012659 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 640513012660 FAD binding pocket [chemical binding]; other site 640513012661 FAD binding motif [chemical binding]; other site 640513012662 phosphate binding motif [ion binding]; other site 640513012663 NAD binding pocket [chemical binding]; other site 640513012664 Predicted transcriptional regulators [Transcription]; Region: COG1695 640513012665 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 640513012666 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 640513012667 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 640513012668 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 640513012669 dimerization interface [polypeptide binding]; other site 640513012670 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640513012671 dimer interface [polypeptide binding]; other site 640513012672 putative CheW interface [polypeptide binding]; other site 640513012673 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 640513012674 putative active site [active] 640513012675 PAS fold; Region: PAS_3; pfam08447 640513012676 heme pocket [chemical binding]; other site 640513012677 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 640513012678 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 640513012679 dimer interface [polypeptide binding]; other site 640513012680 putative CheW interface [polypeptide binding]; other site 640513012681 putrescine--2-oxoglutarate aminotransferase; Provisional; Region: PRK11522 640513012682 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 640513012683 inhibitor-cofactor binding pocket; inhibition site 640513012684 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513012685 catalytic residue [active] 640513012686 autoinducer-2 (AI-2) modifying protein LsrG; Provisional; Region: PRK10486 640513012687 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 640513012688 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 640513012689 putative active site; other site 640513012690 catalytic residue [active] 640513012691 autoinducer 2-binding protein lsrB; Provisional; Region: PRK15408 640513012692 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 640513012693 ligand binding site [chemical binding]; other site 640513012694 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640513012695 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 640513012696 TM-ABC transporter signature motif; other site 640513012697 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640513012698 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 640513012699 TM-ABC transporter signature motif; other site 640513012700 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional; Region: PRK15439 640513012701 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640513012702 Walker A/P-loop; other site 640513012703 ATP binding site [chemical binding]; other site 640513012704 Q-loop/lid; other site 640513012705 ABC transporter signature motif; other site 640513012706 Walker B; other site 640513012707 D-loop; other site 640513012708 H-loop/switch region; other site 640513012709 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640513012710 transcriptional regulator LsrR; Provisional; Region: PRK15418 640513012711 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 640513012712 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 640513012713 Autoinducer-2 kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K; cd07775 640513012714 putative N- and C-terminal domain interface [polypeptide binding]; other site 640513012715 putative active site [active] 640513012716 putative MgATP binding site [chemical binding]; other site 640513012717 catalytic site [active] 640513012718 metal binding site [ion binding]; metal-binding site 640513012719 putative carbohydrate binding site [chemical binding]; other site 640513012720 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 640513012721 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 640513012722 active site 640513012723 FMN binding site [chemical binding]; other site 640513012724 2,4-decadienoyl-CoA binding site; other site 640513012725 catalytic residue [active] 640513012726 4Fe-4S cluster binding site [ion binding]; other site 640513012727 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 640513012728 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 640513012729 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 640513012730 S-adenosylmethionine binding site [chemical binding]; other site 640513012731 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 640513012732 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 640513012733 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640513012734 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 640513012735 serine/threonine transporter SstT; Provisional; Region: PRK13628 640513012736 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640513012737 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 640513012738 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 640513012739 galactarate dehydratase; Region: galactar-dH20; TIGR03248 640513012740 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 640513012741 Glucuronate isomerase; Region: UxaC; pfam02614 640513012742 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 640513012743 D-galactonate transporter; Region: 2A0114; TIGR00893 640513012744 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 640513012745 putative substrate translocation pore; other site 640513012746 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 640513012747 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640513012748 DNA-binding site [nucleotide binding]; DNA binding site 640513012749 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640513012750 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 640513012751 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 640513012752 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 640513012753 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 640513012754 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 640513012755 Predicted membrane protein [Function unknown]; Region: COG5393 640513012756 YqjK-like protein; Region: YqjK; pfam13997 640513012757 Predicted membrane protein [Function unknown]; Region: COG2259 640513012758 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 640513012759 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 640513012760 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 640513012761 putative dimer interface [polypeptide binding]; other site 640513012762 N-terminal domain interface [polypeptide binding]; other site 640513012763 putative substrate binding pocket (H-site) [chemical binding]; other site 640513012764 Predicted membrane protein [Function unknown]; Region: COG3152 640513012765 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513012766 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 640513012767 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 640513012768 dimerization interface [polypeptide binding]; other site 640513012769 Pirin-related protein [General function prediction only]; Region: COG1741 640513012770 Pirin; Region: Pirin; pfam02678 640513012771 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 640513012772 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 640513012773 serine transporter; Region: stp; TIGR00814 640513012774 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 640513012775 dimer interface [polypeptide binding]; other site 640513012776 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 640513012777 Pyruvate formate lyase 1; Region: PFL1; cd01678 640513012778 coenzyme A binding site [chemical binding]; other site 640513012779 active site 640513012780 catalytic residues [active] 640513012781 glycine loop; other site 640513012782 propionate/acetate kinase; Provisional; Region: PRK12379 640513012783 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 640513012784 threonine/serine transporter TdcC; Provisional; Region: PRK13629 640513012785 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 640513012786 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 640513012787 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 640513012788 tetramer interface [polypeptide binding]; other site 640513012789 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513012790 catalytic residue [active] 640513012791 DNA-binding transcriptional activator TdcA; Provisional; Region: PRK10341 640513012792 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513012793 The C-terminal substrate binding domain of LysR-type transcriptional regulator TdcA, which is involved in the degradation of L-serine and L-threonine, contains the type 2 periplasmic binding fold; Region: PBP2_TdcA; cd08418 640513012794 putative substrate binding pocket [chemical binding]; other site 640513012795 putative dimerization interface [polypeptide binding]; other site 640513012796 PAAR motif; Region: PAAR_motif; pfam05488 640513012797 Glycerate kinase family; Region: Gly_kinase; cl00841 640513012798 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 640513012799 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640513012800 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional; Region: PRK10558 640513012801 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 640513012802 D-galactonate transporter; Region: 2A0114; TIGR00893 640513012803 putative substrate translocation pore; other site 640513012804 galactarate dehydratase; Region: galactar-dH20; TIGR03248 640513012805 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 640513012806 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 640513012807 DNA-binding transcriptional regulator AgaR; Provisional; Region: PRK09802 640513012808 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 640513012809 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640513012810 tagatose 6-phosphate aldolase subunit KbaZ; Provisional; Region: PRK15458 640513012811 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 640513012812 active site 640513012813 phosphorylation site [posttranslational modification] 640513012814 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 640513012815 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 640513012816 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 640513012817 active pocket/dimerization site; other site 640513012818 active site 640513012819 phosphorylation site [posttranslational modification] 640513012820 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 640513012821 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 640513012822 active site 640513012823 dimer interface [polypeptide binding]; other site 640513012824 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 640513012825 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 640513012826 dimer interface [polypeptide binding]; other site 640513012827 active site 640513012828 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 640513012829 putative active site [active] 640513012830 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 640513012831 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 640513012832 intersubunit interface [polypeptide binding]; other site 640513012833 active site 640513012834 zinc binding site [ion binding]; other site 640513012835 Na+ binding site [ion binding]; other site 640513012836 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 640513012837 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 640513012838 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 640513012839 active site turn [active] 640513012840 phosphorylation site [posttranslational modification] 640513012841 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 640513012842 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 640513012843 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513012844 homodimer interface [polypeptide binding]; other site 640513012845 catalytic residue [active] 640513012846 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 640513012847 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 640513012848 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 640513012849 putative SAM binding site [chemical binding]; other site 640513012850 putative homodimer interface [polypeptide binding]; other site 640513012851 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 640513012852 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 640513012853 putative ligand binding site [chemical binding]; other site 640513012854 hypothetical protein; Reviewed; Region: PRK12497 640513012855 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 640513012856 dimer interface [polypeptide binding]; other site 640513012857 active site 640513012858 outer membrane lipoprotein; Provisional; Region: PRK11023 640513012859 BON domain; Region: BON; pfam04972 640513012860 BON domain; Region: BON; pfam04972 640513012861 Predicted permease; Region: DUF318; pfam03773 640513012862 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 640513012863 NADH(P)-binding; Region: NAD_binding_10; pfam13460 640513012864 NAD binding site [chemical binding]; other site 640513012865 active site 640513012866 hypothetical protein; Provisional; Region: PRK03467 640513012867 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 640513012868 GIY-YIG motif/motif A; other site 640513012869 putative active site [active] 640513012870 putative metal binding site [ion binding]; other site 640513012871 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 640513012872 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640513012873 Coenzyme A binding pocket [chemical binding]; other site 640513012874 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 640513012875 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 640513012876 Peptidase family U32; Region: Peptidase_U32; pfam01136 640513012877 putative protease; Provisional; Region: PRK15447 640513012878 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 640513012879 hypothetical protein; Provisional; Region: PRK10508 640513012880 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 640513012881 tryptophan permease; Provisional; Region: PRK10483 640513012882 aromatic amino acid transport protein; Region: araaP; TIGR00837 640513012883 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 640513012884 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 640513012885 ATP binding site [chemical binding]; other site 640513012886 Mg++ binding site [ion binding]; other site 640513012887 motif III; other site 640513012888 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 640513012889 nucleotide binding region [chemical binding]; other site 640513012890 ATP-binding site [chemical binding]; other site 640513012891 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 640513012892 putative RNA binding site [nucleotide binding]; other site 640513012893 lipoprotein NlpI; Provisional; Region: PRK11189 640513012894 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 640513012895 binding surface 640513012896 TPR motif; other site 640513012897 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 640513012898 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 640513012899 RNase E interface [polypeptide binding]; other site 640513012900 trimer interface [polypeptide binding]; other site 640513012901 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 640513012902 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 640513012903 RNase E interface [polypeptide binding]; other site 640513012904 trimer interface [polypeptide binding]; other site 640513012905 active site 640513012906 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 640513012907 putative nucleic acid binding region [nucleotide binding]; other site 640513012908 G-X-X-G motif; other site 640513012909 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 640513012910 RNA binding site [nucleotide binding]; other site 640513012911 domain interface; other site 640513012912 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 640513012913 16S/18S rRNA binding site [nucleotide binding]; other site 640513012914 S13e-L30e interaction site [polypeptide binding]; other site 640513012915 25S rRNA binding site [nucleotide binding]; other site 640513012916 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 640513012917 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 640513012918 RNA binding site [nucleotide binding]; other site 640513012919 active site 640513012920 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 640513012921 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 640513012922 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 640513012923 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 640513012924 translation initiation factor IF-2; Region: IF-2; TIGR00487 640513012925 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 640513012926 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 640513012927 G1 box; other site 640513012928 putative GEF interaction site [polypeptide binding]; other site 640513012929 GTP/Mg2+ binding site [chemical binding]; other site 640513012930 Switch I region; other site 640513012931 G2 box; other site 640513012932 G3 box; other site 640513012933 Switch II region; other site 640513012934 G4 box; other site 640513012935 G5 box; other site 640513012936 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 640513012937 Translation-initiation factor 2; Region: IF-2; pfam11987 640513012938 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 640513012939 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 640513012940 NusA N-terminal domain; Region: NusA_N; pfam08529 640513012941 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 640513012942 RNA binding site [nucleotide binding]; other site 640513012943 homodimer interface [polypeptide binding]; other site 640513012944 NusA-like KH domain; Region: KH_5; pfam13184 640513012945 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 640513012946 G-X-X-G motif; other site 640513012947 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 640513012948 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 640513012949 ribosome maturation protein RimP; Reviewed; Region: PRK00092 640513012950 Sm and related proteins; Region: Sm_like; cl00259 640513012951 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 640513012952 putative oligomer interface [polypeptide binding]; other site 640513012953 putative RNA binding site [nucleotide binding]; other site 640513012954 argininosuccinate synthase; Validated; Region: PRK05370 640513012955 argininosuccinate synthase; Provisional; Region: PRK13820 640513012956 Preprotein translocase SecG subunit; Region: SecG; pfam03840 640513012957 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 640513012958 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 640513012959 PAAR motif; Region: PAAR_motif; pfam05488 640513012960 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 640513012961 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 640513012962 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640513012963 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 640513012964 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 640513012965 ImpA domain protein; Region: DUF3702; pfam12486 640513012966 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 640513012967 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 640513012968 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 640513012969 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 640513012970 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 640513012971 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 640513012972 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 640513012973 Walker A motif; other site 640513012974 ATP binding site [chemical binding]; other site 640513012975 Walker B motif; other site 640513012976 arginine finger; other site 640513012977 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 640513012978 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 640513012979 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 640513012980 Walker A motif; other site 640513012981 ATP binding site [chemical binding]; other site 640513012982 Walker B motif; other site 640513012983 arginine finger; other site 640513012984 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 640513012985 Walker A motif; other site 640513012986 ATP binding site [chemical binding]; other site 640513012987 Walker B motif; other site 640513012988 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 640513012989 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 640513012990 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 640513012991 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 640513012992 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 640513012993 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 640513012994 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cl00062 640513012995 phosphopeptide binding site; other site 640513012996 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 640513012997 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 640513012998 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 640513012999 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 640513013000 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 640513013001 Protein of unknown function (DUF877); Region: DUF877; pfam05943 640513013002 Protein of unknown function (DUF770); Region: DUF770; pfam05591 640513013003 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 640513013004 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 640513013005 active site 640513013006 substrate binding site [chemical binding]; other site 640513013007 metal binding site [ion binding]; metal-binding site 640513013008 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 640513013009 dihydropteroate synthase; Region: DHPS; TIGR01496 640513013010 substrate binding pocket [chemical binding]; other site 640513013011 dimer interface [polypeptide binding]; other site 640513013012 inhibitor binding site; inhibition site 640513013013 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 640513013014 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 640513013015 Walker A motif; other site 640513013016 ATP binding site [chemical binding]; other site 640513013017 Walker B motif; other site 640513013018 arginine finger; other site 640513013019 Peptidase family M41; Region: Peptidase_M41; pfam01434 640513013020 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 640513013021 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 640513013022 S-adenosylmethionine binding site [chemical binding]; other site 640513013023 RNA-binding protein YhbY; Provisional; Region: PRK10343 640513013024 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 640513013025 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 640513013026 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 640513013027 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 640513013028 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 640513013029 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 640513013030 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 640513013031 active site 640513013032 phosphorylation site [posttranslational modification] 640513013033 intermolecular recognition site; other site 640513013034 dimerization interface [polypeptide binding]; other site 640513013035 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 640513013036 DNA binding site [nucleotide binding] 640513013037 sensor protein BasS/PmrB; Provisional; Region: PRK10755 640513013038 HAMP domain; Region: HAMP; pfam00672 640513013039 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 640513013040 dimer interface [polypeptide binding]; other site 640513013041 phosphorylation site [posttranslational modification] 640513013042 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 640513013043 ATP binding site [chemical binding]; other site 640513013044 Mg2+ binding site [ion binding]; other site 640513013045 G-X-G motif; other site 640513013046 GTPase CgtA; Reviewed; Region: obgE; PRK12298 640513013047 GTP1/OBG; Region: GTP1_OBG; pfam01018 640513013048 Obg GTPase; Region: Obg; cd01898 640513013049 G1 box; other site 640513013050 GTP/Mg2+ binding site [chemical binding]; other site 640513013051 Switch I region; other site 640513013052 G2 box; other site 640513013053 G3 box; other site 640513013054 Switch II region; other site 640513013055 G4 box; other site 640513013056 G5 box; other site 640513013057 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 640513013058 EamA-like transporter family; Region: EamA; pfam00892 640513013059 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 640513013060 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 640513013061 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 640513013062 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 640513013063 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 640513013064 substrate binding pocket [chemical binding]; other site 640513013065 chain length determination region; other site 640513013066 substrate-Mg2+ binding site; other site 640513013067 catalytic residues [active] 640513013068 aspartate-rich region 1; other site 640513013069 active site lid residues [active] 640513013070 aspartate-rich region 2; other site 640513013071 DNA-binding transcriptional regulator Nlp; Provisional; Region: PRK10344 640513013072 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 640513013073 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 640513013074 hinge; other site 640513013075 active site 640513013076 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 640513013077 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 640513013078 anti sigma factor interaction site; other site 640513013079 regulatory phosphorylation site [posttranslational modification]; other site 640513013080 ABC transporter periplasmic binding protein MlaC; Provisional; Region: PRK15117 640513013081 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 640513013082 mce related protein; Region: MCE; pfam02470 640513013083 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 640513013084 conserved hypothetical integral membrane protein; Region: TIGR00056 640513013085 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 640513013086 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 640513013087 Walker A/P-loop; other site 640513013088 ATP binding site [chemical binding]; other site 640513013089 Q-loop/lid; other site 640513013090 ABC transporter signature motif; other site 640513013091 Walker B; other site 640513013092 D-loop; other site 640513013093 H-loop/switch region; other site 640513013094 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 640513013095 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 640513013096 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 640513013097 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 640513013098 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 640513013099 putative active site [active] 640513013100 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 640513013101 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 640513013102 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 640513013103 lipopolysaccharide exporter periplasmic protein; Provisional; Region: PRK10893 640513013104 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 640513013105 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 640513013106 lipopolysaccharide transport periplasmic protein LptA; Provisional; Region: PRK10894 640513013107 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 640513013108 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 640513013109 Walker A/P-loop; other site 640513013110 ATP binding site [chemical binding]; other site 640513013111 Q-loop/lid; other site 640513013112 ABC transporter signature motif; other site 640513013113 Walker B; other site 640513013114 D-loop; other site 640513013115 H-loop/switch region; other site 640513013116 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 640513013117 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 640513013118 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 640513013119 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 640513013120 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 640513013121 30S subunit binding site; other site 640513013122 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 640513013123 active site 640513013124 phosphorylation site [posttranslational modification] 640513013125 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 640513013126 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 640513013127 dimerization domain swap beta strand [polypeptide binding]; other site 640513013128 regulatory protein interface [polypeptide binding]; other site 640513013129 active site 640513013130 regulatory phosphorylation site [posttranslational modification]; other site 640513013131 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 640513013132 Transglycosylase; Region: Transgly; cl17702 640513013133 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 640513013134 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 640513013135 conserved cys residue [active] 640513013136 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 640513013137 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 640513013138 putative active site [active] 640513013139 heme pocket [chemical binding]; other site 640513013140 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 640513013141 dimer interface [polypeptide binding]; other site 640513013142 phosphorylation site [posttranslational modification] 640513013143 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 640513013144 ATP binding site [chemical binding]; other site 640513013145 Mg2+ binding site [ion binding]; other site 640513013146 G-X-G motif; other site 640513013147 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 640513013148 active site 640513013149 phosphorylation site [posttranslational modification] 640513013150 intermolecular recognition site; other site 640513013151 dimerization interface [polypeptide binding]; other site 640513013152 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 640513013153 putative binding surface; other site 640513013154 active site 640513013155 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 640513013156 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 640513013157 lipopolysaccharide ABC transporter permease LptF; Provisional; Region: PRK15120 640513013158 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 640513013159 multifunctional aminopeptidase A; Provisional; Region: PRK00913 640513013160 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 640513013161 interface (dimer of trimers) [polypeptide binding]; other site 640513013162 Substrate-binding/catalytic site; other site 640513013163 Zn-binding sites [ion binding]; other site 640513013164 DNA polymerase III subunit chi; Validated; Region: PRK05728 640513013165 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 640513013166 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 640513013167 HIGH motif; other site 640513013168 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 640513013169 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 640513013170 active site 640513013171 KMSKS motif; other site 640513013172 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 640513013173 tRNA binding surface [nucleotide binding]; other site 640513013174 anticodon binding site; other site 640513013175 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 640513013176 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 640513013177 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640513013178 Coenzyme A binding pocket [chemical binding]; other site 640513013179 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 640513013180 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 640513013181 putative NAD(P) binding site [chemical binding]; other site 640513013182 putative substrate binding site [chemical binding]; other site 640513013183 catalytic Zn binding site [ion binding]; other site 640513013184 structural Zn binding site [ion binding]; other site 640513013185 dimer interface [polypeptide binding]; other site 640513013186 dihydroxyacetone kinase, ATP-dependent; Region: dak_ATP; TIGR02361 640513013187 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 640513013188 DAK2 domain; Region: Dak2; pfam02734 640513013189 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 640513013190 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; cl17189 640513013191 Walker A motif; other site 640513013192 ATP binding site [chemical binding]; other site 640513013193 Walker B motif; other site 640513013194 radical SAM protein, TIGR01212 family; Region: TIGR01212 640513013195 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 640513013196 FeS/SAM binding site; other site 640513013197 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 640513013198 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 640513013199 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640513013200 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 640513013201 N-acetylmannosamine kinase; Provisional; Region: PRK05082 640513013202 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 640513013203 nucleotide binding site [chemical binding]; other site 640513013204 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 640513013205 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 640513013206 putative active site cavity [active] 640513013207 putative sialic acid transporter; Provisional; Region: PRK03893 640513013208 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 640513013209 putative substrate translocation pore; other site 640513013210 N-acetylneuraminate lyase; Provisional; Region: PRK04147 640513013211 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 640513013212 inhibitor site; inhibition site 640513013213 active site 640513013214 dimer interface [polypeptide binding]; other site 640513013215 catalytic residue [active] 640513013216 transcriptional regulator NanR; Provisional; Region: PRK03837 640513013217 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640513013218 DNA-binding site [nucleotide binding]; DNA binding site 640513013219 FCD domain; Region: FCD; pfam07729 640513013220 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 640513013221 stringent starvation protein A; Provisional; Region: sspA; PRK09481 640513013222 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 640513013223 C-terminal domain interface [polypeptide binding]; other site 640513013224 putative GSH binding site (G-site) [chemical binding]; other site 640513013225 dimer interface [polypeptide binding]; other site 640513013226 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 640513013227 dimer interface [polypeptide binding]; other site 640513013228 N-terminal domain interface [polypeptide binding]; other site 640513013229 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 640513013230 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 640513013231 23S rRNA interface [nucleotide binding]; other site 640513013232 L3 interface [polypeptide binding]; other site 640513013233 Predicted ATPase [General function prediction only]; Region: COG1485 640513013234 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 640513013235 hypothetical protein; Provisional; Region: PRK11677 640513013236 serine endoprotease; Provisional; Region: PRK10139 640513013237 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 640513013238 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 640513013239 protein binding site [polypeptide binding]; other site 640513013240 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 640513013241 serine endoprotease; Provisional; Region: PRK10898 640513013242 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 640513013243 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 640513013244 malate dehydrogenase; Provisional; Region: PRK05086 640513013245 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 640513013246 NAD binding site [chemical binding]; other site 640513013247 dimerization interface [polypeptide binding]; other site 640513013248 Substrate binding site [chemical binding]; other site 640513013249 arginine repressor; Provisional; Region: PRK05066 640513013250 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 640513013251 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 640513013252 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 640513013253 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 640513013254 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell; Region: Barstar; cd05142 640513013255 RNAase interaction site [polypeptide binding]; other site 640513013256 succinic semialdehyde dehydrogenase; Region: PLN02278 640513013257 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 640513013258 tetramerization interface [polypeptide binding]; other site 640513013259 NAD(P) binding site [chemical binding]; other site 640513013260 catalytic residues [active] 640513013261 p-hydroxybenzoic acid efflux subunit AaeB; Provisional; Region: PRK10631 640513013262 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 640513013263 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 640513013264 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640513013265 HlyD family secretion protein; Region: HlyD_3; pfam13437 640513013266 efflux system membrane protein; Provisional; Region: PRK11594 640513013267 transcriptional regulator; Provisional; Region: PRK10632 640513013268 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513013269 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 640513013270 putative effector binding pocket; other site 640513013271 dimerization interface [polypeptide binding]; other site 640513013272 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3477 640513013273 protease TldD; Provisional; Region: tldD; PRK10735 640513013274 hypothetical protein; Provisional; Region: PRK10899 640513013275 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 640513013276 ribonuclease G; Provisional; Region: PRK11712 640513013277 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 640513013278 homodimer interface [polypeptide binding]; other site 640513013279 oligonucleotide binding site [chemical binding]; other site 640513013280 Maf-like protein; Region: Maf; pfam02545 640513013281 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 640513013282 active site 640513013283 dimer interface [polypeptide binding]; other site 640513013284 rod shape-determining protein MreD; Provisional; Region: PRK11060 640513013285 rod shape-determining protein MreC; Region: mreC; TIGR00219 640513013286 rod shape-determining protein MreC; Region: MreC; pfam04085 640513013287 rod shape-determining protein MreB; Provisional; Region: PRK13927 640513013288 MreB and similar proteins; Region: MreB_like; cd10225 640513013289 nucleotide binding site [chemical binding]; other site 640513013290 Mg binding site [ion binding]; other site 640513013291 putative protofilament interaction site [polypeptide binding]; other site 640513013292 RodZ interaction site [polypeptide binding]; other site 640513013293 regulatory protein CsrD; Provisional; Region: PRK11059 640513013294 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640513013295 metal binding site [ion binding]; metal-binding site 640513013296 active site 640513013297 I-site; other site 640513013298 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; cd01948 640513013299 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 640513013300 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 640513013301 NADP binding site [chemical binding]; other site 640513013302 dimer interface [polypeptide binding]; other site 640513013303 TMAO/DMSO reductase; Reviewed; Region: PRK05363 640513013304 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 640513013305 Moco binding site; other site 640513013306 metal coordination site [ion binding]; other site 640513013307 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 640513013308 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 640513013309 Dehydroquinase class II; Region: DHquinase_II; pfam01220 640513013310 trimer interface [polypeptide binding]; other site 640513013311 active site 640513013312 dimer interface [polypeptide binding]; other site 640513013313 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 640513013314 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 640513013315 carboxyltransferase (CT) interaction site; other site 640513013316 biotinylation site [posttranslational modification]; other site 640513013317 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 640513013318 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 640513013319 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 640513013320 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 640513013321 hypothetical protein; Provisional; Region: PRK10633 640513013322 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 640513013323 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 640513013324 Na binding site [ion binding]; other site 640513013325 ribosomal protein L11 methyltransferase; Region: prmA; TIGR00406 640513013326 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 640513013327 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 640513013328 active site 640513013329 zinc binding site [ion binding]; other site 640513013330 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 640513013331 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 640513013332 FMN binding site [chemical binding]; other site 640513013333 active site 640513013334 catalytic residues [active] 640513013335 substrate binding site [chemical binding]; other site 640513013336 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 640513013337 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 640513013338 Abortive infection C-terminus; Region: Abi_C; pfam14355 640513013339 Phage-related protein, tail component [Function unknown]; Region: COG4723 640513013340 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 640513013341 Phage terminase, small subunit; Region: Terminase_4; cl01525 640513013342 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 640513013343 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 640513013344 active site 640513013345 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 640513013346 oligomerization interface [polypeptide binding]; other site 640513013347 Bacteriophage head-tail adaptor [General function prediction only]; Region: COG5614 640513013348 Phage-related protein [Function unknown]; Region: COG4695 640513013349 Phage portal protein; Region: Phage_portal; pfam04860 640513013350 Phage head maturation protease [General function prediction only]; Region: COG3740 640513013351 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 640513013352 Phage capsid family; Region: Phage_capsid; pfam05065 640513013353 AAA domain; Region: AAA_25; pfam13481 640513013354 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 640513013355 Walker A motif; other site 640513013356 ATP binding site [chemical binding]; other site 640513013357 Walker B motif; other site 640513013358 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 640513013359 integrase; Provisional; Region: PRK09692 640513013360 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 640513013361 active site 640513013362 Int/Topo IB signature motif; other site 640513013363 Protein of unknown function (DUF2556); Region: DUF2556; pfam10831 640513013364 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 640513013365 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 640513013366 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 640513013367 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 640513013368 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640513013369 metal binding site [ion binding]; metal-binding site 640513013370 active site 640513013371 I-site; other site 640513013372 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; cd01948 640513013373 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 640513013374 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640513013375 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 640513013376 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 640513013377 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 640513013378 HlyD family secretion protein; Region: HlyD_3; pfam13437 640513013379 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 640513013380 Protein export membrane protein; Region: SecD_SecF; cl14618 640513013381 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 640513013382 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 640513013383 substrate binding pocket [chemical binding]; other site 640513013384 membrane-bound complex binding site; other site 640513013385 hinge residues; other site 640513013386 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 640513013387 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 640513013388 conserved gate region; other site 640513013389 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 640513013390 dimer interface [polypeptide binding]; other site 640513013391 conserved gate region; other site 640513013392 putative PBP binding loops; other site 640513013393 ABC-ATPase subunit interface; other site 640513013394 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 640513013395 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 640513013396 dimer interface [polypeptide binding]; other site 640513013397 conserved gate region; other site 640513013398 putative PBP binding loops; other site 640513013399 ABC-ATPase subunit interface; other site 640513013400 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 640513013401 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 640513013402 Walker A/P-loop; other site 640513013403 ATP binding site [chemical binding]; other site 640513013404 Q-loop/lid; other site 640513013405 ABC transporter signature motif; other site 640513013406 Walker B; other site 640513013407 D-loop; other site 640513013408 H-loop/switch region; other site 640513013409 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 640513013410 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 640513013411 trimer interface [polypeptide binding]; other site 640513013412 putative metal binding site [ion binding]; other site 640513013413 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 640513013414 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 640513013415 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 640513013416 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 640513013417 shikimate binding site; other site 640513013418 NAD(P) binding site [chemical binding]; other site 640513013419 tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; Provisional; Region: PRK10634 640513013420 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 640513013421 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 640513013422 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 640513013423 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 640513013424 hypothetical protein; Validated; Region: PRK03430 640513013425 hypothetical protein; Provisional; Region: PRK10736 640513013426 DNA protecting protein DprA; Region: dprA; TIGR00732 640513013427 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 640513013428 active site 640513013429 catalytic residues [active] 640513013430 metal binding site [ion binding]; metal-binding site 640513013431 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 640513013432 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 640513013433 putative active site [active] 640513013434 substrate binding site [chemical binding]; other site 640513013435 putative cosubstrate binding site; other site 640513013436 catalytic site [active] 640513013437 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 640513013438 substrate binding site [chemical binding]; other site 640513013439 16S rRNA methyltransferase B; Provisional; Region: PRK10901 640513013440 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 640513013441 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 640513013442 S-adenosylmethionine binding site [chemical binding]; other site 640513013443 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 640513013444 TrkA-N domain; Region: TrkA_N; pfam02254 640513013445 TrkA-C domain; Region: TrkA_C; pfam02080 640513013446 TrkA-N domain; Region: TrkA_N; pfam02254 640513013447 TrkA-C domain; Region: TrkA_C; pfam02080 640513013448 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 640513013449 Large-conductance mechanosensitive channel, MscL; Region: MscL; pfam01741 640513013450 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 640513013451 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 640513013452 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 640513013453 DNA binding residues [nucleotide binding] 640513013454 dimer interface [polypeptide binding]; other site 640513013455 metal binding site [ion binding]; metal-binding site 640513013456 hypothetical protein; Provisional; Region: PRK10203 640513013457 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 640513013458 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 640513013459 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 640513013460 alphaNTD homodimer interface [polypeptide binding]; other site 640513013461 alphaNTD - beta interaction site [polypeptide binding]; other site 640513013462 alphaNTD - beta' interaction site [polypeptide binding]; other site 640513013463 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 640513013464 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 640513013465 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 640513013466 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 640513013467 RNA binding surface [nucleotide binding]; other site 640513013468 30S ribosomal protein S11; Validated; Region: PRK05309 640513013469 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 640513013470 30S ribosomal protein S13; Region: bact_S13; TIGR03631 640513013471 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 640513013472 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 640513013473 SecY translocase; Region: SecY; pfam00344 640513013474 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 640513013475 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 640513013476 23S rRNA binding site [nucleotide binding]; other site 640513013477 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 640513013478 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 640513013479 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 640513013480 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 640513013481 23S rRNA interface [nucleotide binding]; other site 640513013482 5S rRNA interface [nucleotide binding]; other site 640513013483 L27 interface [polypeptide binding]; other site 640513013484 L5 interface [polypeptide binding]; other site 640513013485 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 640513013486 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 640513013487 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 640513013488 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 640513013489 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 640513013490 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 640513013491 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 640513013492 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 640513013493 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 640513013494 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 640513013495 RNA binding site [nucleotide binding]; other site 640513013496 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 640513013497 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 640513013498 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 640513013499 23S rRNA interface [nucleotide binding]; other site 640513013500 putative translocon interaction site; other site 640513013501 signal recognition particle (SRP54) interaction site; other site 640513013502 L23 interface [polypeptide binding]; other site 640513013503 trigger factor interaction site; other site 640513013504 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 640513013505 23S rRNA interface [nucleotide binding]; other site 640513013506 5S rRNA interface [nucleotide binding]; other site 640513013507 putative antibiotic binding site [chemical binding]; other site 640513013508 L25 interface [polypeptide binding]; other site 640513013509 L27 interface [polypeptide binding]; other site 640513013510 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 640513013511 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 640513013512 G-X-X-G motif; other site 640513013513 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 640513013514 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 640513013515 protein-rRNA interface [nucleotide binding]; other site 640513013516 putative translocon binding site; other site 640513013517 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 640513013518 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 640513013519 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 640513013520 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 640513013521 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 640513013522 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 640513013523 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 640513013524 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 640513013525 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 640513013526 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 640513013527 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 640513013528 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 640513013529 heme binding site [chemical binding]; other site 640513013530 ferroxidase pore; other site 640513013531 ferroxidase diiron center [ion binding]; other site 640513013532 bacterioferritin-associated ferredoxin; Provisional; Region: PRK10509 640513013533 elongation factor Tu; Reviewed; Region: PRK00049 640513013534 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 640513013535 G1 box; other site 640513013536 GEF interaction site [polypeptide binding]; other site 640513013537 GTP/Mg2+ binding site [chemical binding]; other site 640513013538 Switch I region; other site 640513013539 G2 box; other site 640513013540 G3 box; other site 640513013541 Switch II region; other site 640513013542 G4 box; other site 640513013543 G5 box; other site 640513013544 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 640513013545 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 640513013546 Antibiotic Binding Site [chemical binding]; other site 640513013547 elongation factor G; Reviewed; Region: PRK00007 640513013548 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 640513013549 G1 box; other site 640513013550 putative GEF interaction site [polypeptide binding]; other site 640513013551 GTP/Mg2+ binding site [chemical binding]; other site 640513013552 Switch I region; other site 640513013553 G2 box; other site 640513013554 G3 box; other site 640513013555 Switch II region; other site 640513013556 G4 box; other site 640513013557 G5 box; other site 640513013558 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 640513013559 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 640513013560 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 640513013561 30S ribosomal protein S7; Validated; Region: PRK05302 640513013562 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 640513013563 S17 interaction site [polypeptide binding]; other site 640513013564 S8 interaction site; other site 640513013565 16S rRNA interaction site [nucleotide binding]; other site 640513013566 streptomycin interaction site [chemical binding]; other site 640513013567 23S rRNA interaction site [nucleotide binding]; other site 640513013568 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 640513013569 sulfur transfer complex subunit TusB; Provisional; Region: PRK13510 640513013570 sulfur relay protein TusC; Validated; Region: PRK00211 640513013571 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 640513013572 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 640513013573 YheO-like PAS domain; Region: PAS_6; pfam08348 640513013574 HTH domain; Region: HTH_22; pfam13309 640513013575 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 640513013576 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 640513013577 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 640513013578 phi X174 lysis protein; Provisional; Region: PRK02793 640513013579 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 640513013580 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 640513013581 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only]; Region: COG3529 640513013582 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 640513013583 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 640513013584 TrkA-N domain; Region: TrkA_N; pfam02254 640513013585 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional; Region: PRK04930 640513013586 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 640513013587 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513013588 Walker A/P-loop; other site 640513013589 ATP binding site [chemical binding]; other site 640513013590 Q-loop/lid; other site 640513013591 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640513013592 ABC transporter signature motif; other site 640513013593 Walker B; other site 640513013594 D-loop; other site 640513013595 ABC transporter; Region: ABC_tran_2; pfam12848 640513013596 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 640513013597 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 640513013598 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513013599 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513013600 The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold; Region: PBP2_MdcR; cd08416 640513013601 putative dimerization interface [polypeptide binding]; other site 640513013602 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 640513013603 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 640513013604 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 640513013605 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 640513013606 he Auxin Efflux Carrier (AEC) Family; Region: 2a69; TIGR00946 640513013607 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; pfam06833 640513013608 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 640513013609 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 640513013610 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 640513013611 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 640513013612 Coenzyme A transferase; Region: CoA_trans; cl17247 640513013613 putative hydrolase; Provisional; Region: PRK10985 640513013614 hypothetical protein; Provisional; Region: PRK04966 640513013615 phosphoribulokinase; Provisional; Region: PRK15453 640513013616 active site 640513013617 hypothetical protein; Provisional; Region: PRK10738 640513013618 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 640513013619 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 640513013620 ligand binding site [chemical binding]; other site 640513013621 flexible hinge region; other site 640513013622 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 640513013623 putative switch regulator; other site 640513013624 non-specific DNA interactions [nucleotide binding]; other site 640513013625 DNA binding site [nucleotide binding] 640513013626 sequence specific DNA binding site [nucleotide binding]; other site 640513013627 putative cAMP binding site [chemical binding]; other site 640513013628 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 640513013629 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 640513013630 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 640513013631 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 640513013632 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 640513013633 inhibitor-cofactor binding pocket; inhibition site 640513013634 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513013635 catalytic residue [active] 640513013636 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 640513013637 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 640513013638 glutamine binding [chemical binding]; other site 640513013639 catalytic triad [active] 640513013640 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 640513013641 cell filamentation protein Fic; Provisional; Region: PRK10347 640513013642 hypothetical protein; Provisional; Region: PRK10204 640513013643 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 640513013644 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 640513013645 substrate binding site [chemical binding]; other site 640513013646 putative transporter; Provisional; Region: PRK03699 640513013647 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 640513013648 putative substrate translocation pore; other site 640513013649 cytosine deaminase; Provisional; Region: PRK09230 640513013650 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 640513013651 active site 640513013652 nitrite reductase subunit NirD; Provisional; Region: PRK14989 640513013653 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640513013654 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 640513013655 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 640513013656 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 640513013657 nitrite transporter NirC; Provisional; Region: PRK11562 640513013658 siroheme synthase; Provisional; Region: cysG; PRK10637 640513013659 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 640513013660 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 640513013661 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 640513013662 active site 640513013663 SAM binding site [chemical binding]; other site 640513013664 homodimer interface [polypeptide binding]; other site 640513013665 Protein of unknown function (DUF4223); Region: DUF4223; pfam13978 640513013666 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 640513013667 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 640513013668 active site 640513013669 HIGH motif; other site 640513013670 dimer interface [polypeptide binding]; other site 640513013671 KMSKS motif; other site 640513013672 phosphoglycolate phosphatase; Provisional; Region: PRK13222 640513013673 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 640513013674 motif II; other site 640513013675 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 640513013676 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 640513013677 substrate binding site [chemical binding]; other site 640513013678 hexamer interface [polypeptide binding]; other site 640513013679 metal binding site [ion binding]; metal-binding site 640513013680 DNA adenine methylase; Provisional; Region: PRK10904 640513013681 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 640513013682 cell division protein DamX; Validated; Region: PRK10905 640513013683 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 640513013684 active site 640513013685 dimer interface [polypeptide binding]; other site 640513013686 metal binding site [ion binding]; metal-binding site 640513013687 outer membrane porin HofQ; Provisional; Region: hofQ; PRK10560 640513013688 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 640513013689 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 640513013690 Protein of unknown function (DUF2531); Region: DUF2531; pfam10748 640513013691 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 640513013692 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 640513013693 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 640513013694 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 640513013695 Transglycosylase; Region: Transgly; pfam00912 640513013696 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 640513013697 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 640513013698 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 640513013699 dimer interface [polypeptide binding]; other site 640513013700 active site 640513013701 ADP-ribose binding site [chemical binding]; other site 640513013702 nudix motif; other site 640513013703 metal binding site [ion binding]; metal-binding site 640513013704 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 640513013705 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 640513013706 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 640513013707 motif II; other site 640513013708 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 640513013709 RNA binding surface [nucleotide binding]; other site 640513013710 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 640513013711 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 640513013712 dimerization interface [polypeptide binding]; other site 640513013713 domain crossover interface; other site 640513013714 redox-dependent activation switch; other site 640513013715 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 640513013716 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 640513013717 active site 640513013718 substrate-binding site [chemical binding]; other site 640513013719 metal-binding site [ion binding] 640513013720 ATP binding site [chemical binding]; other site 640513013721 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 640513013722 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 640513013723 dimerization interface [polypeptide binding]; other site 640513013724 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 640513013725 dimer interface [polypeptide binding]; other site 640513013726 phosphorylation site [posttranslational modification] 640513013727 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 640513013728 ATP binding site [chemical binding]; other site 640513013729 G-X-G motif; other site 640513013730 osmolarity response regulator; Provisional; Region: ompR; PRK09468 640513013731 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 640513013732 active site 640513013733 phosphorylation site [posttranslational modification] 640513013734 intermolecular recognition site; other site 640513013735 dimerization interface [polypeptide binding]; other site 640513013736 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 640513013737 DNA binding site [nucleotide binding] 640513013738 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 640513013739 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 640513013740 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 640513013741 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 640513013742 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 640513013743 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 640513013744 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 640513013745 RNA binding site [nucleotide binding]; other site 640513013746 ferrous iron transport protein A; Reviewed; Region: feoA; PRK09555 640513013747 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 640513013748 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 640513013749 G1 box; other site 640513013750 GTP/Mg2+ binding site [chemical binding]; other site 640513013751 Switch I region; other site 640513013752 G2 box; other site 640513013753 G3 box; other site 640513013754 Switch II region; other site 640513013755 G4 box; other site 640513013756 G5 box; other site 640513013757 Nucleoside recognition; Region: Gate; pfam07670 640513013758 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 640513013759 Nucleoside recognition; Region: Gate; pfam07670 640513013760 ferrous iron transport protein FeoC; Provisional; Region: PRK15431 640513013761 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 640513013762 carboxylesterase BioH; Provisional; Region: PRK10349 640513013763 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 640513013764 DNA utilization protein GntX; Provisional; Region: PRK11595 640513013765 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 640513013766 active site 640513013767 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 640513013768 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 640513013769 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 640513013770 high-affinity gluconate transporter; Provisional; Region: PRK14984 640513013771 gluconate transporter; Region: gntP; TIGR00791 640513013772 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 640513013773 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 640513013774 maltodextrin phosphorylase; Provisional; Region: PRK14985 640513013775 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 640513013776 active site pocket [active] 640513013777 transcriptional regulator MalT; Provisional; Region: PRK04841 640513013778 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 640513013779 DNA binding residues [nucleotide binding] 640513013780 dimerization interface [polypeptide binding]; other site 640513013781 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 640513013782 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 640513013783 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 640513013784 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640513013785 intramembrane serine protease GlpG; Provisional; Region: PRK10907 640513013786 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 640513013787 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 640513013788 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 640513013789 active site residue [active] 640513013790 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 640513013791 glycogen phosphorylase; Provisional; Region: PRK14986 640513013792 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 640513013793 homodimer interface [polypeptide binding]; other site 640513013794 active site pocket [active] 640513013795 glycogen synthase; Provisional; Region: glgA; PRK00654 640513013796 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 640513013797 ADP-binding pocket [chemical binding]; other site 640513013798 homodimer interface [polypeptide binding]; other site 640513013799 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 640513013800 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 640513013801 ligand binding site; other site 640513013802 oligomer interface; other site 640513013803 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 640513013804 dimer interface [polypeptide binding]; other site 640513013805 N-terminal domain interface [polypeptide binding]; other site 640513013806 sulfate 1 binding site; other site 640513013807 glycogen debranching enzyme; Provisional; Region: PRK03705 640513013808 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 640513013809 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 640513013810 active site 640513013811 catalytic site [active] 640513013812 glycogen branching enzyme; Provisional; Region: PRK05402 640513013813 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 640513013814 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 640513013815 active site 640513013816 catalytic site [active] 640513013817 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 640513013818 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 640513013819 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 640513013820 putative antibiotic transporter; Provisional; Region: PRK10739 640513013821 low affinity gluconate transporter; Provisional; Region: PRK10472 640513013822 gluconate transporter; Region: gntP; TIGR00791 640513013823 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 640513013824 ATP-binding site [chemical binding]; other site 640513013825 Gluconate-6-phosphate binding site [chemical binding]; other site 640513013826 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 640513013827 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640513013828 DNA binding site [nucleotide binding] 640513013829 domain linker motif; other site 640513013830 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 640513013831 putative ligand binding site [chemical binding]; other site 640513013832 putative dimerization interface [polypeptide binding]; other site 640513013833 Pirin-related protein [General function prediction only]; Region: COG1741 640513013834 Pirin; Region: Pirin; pfam02678 640513013835 putative oxidoreductase; Provisional; Region: PRK10206 640513013836 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 640513013837 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 640513013838 putative acetyltransferase YhhY; Provisional; Region: PRK10140 640513013839 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640513013840 Coenzyme A binding pocket [chemical binding]; other site 640513013841 gamma-glutamyltranspeptidase; Reviewed; Region: ggt; PRK09615 640513013842 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 640513013843 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 640513013844 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 640513013845 putative active site [active] 640513013846 catalytic site [active] 640513013847 putative metal binding site [ion binding]; other site 640513013848 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 640513013849 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 640513013850 Walker A/P-loop; other site 640513013851 ATP binding site [chemical binding]; other site 640513013852 Q-loop/lid; other site 640513013853 ABC transporter signature motif; other site 640513013854 Walker B; other site 640513013855 D-loop; other site 640513013856 H-loop/switch region; other site 640513013857 TOBE domain; Region: TOBE_2; pfam08402 640513013858 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 640513013859 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 640513013860 dimer interface [polypeptide binding]; other site 640513013861 conserved gate region; other site 640513013862 putative PBP binding loops; other site 640513013863 ABC-ATPase subunit interface; other site 640513013864 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 640513013865 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 640513013866 putative PBP binding loops; other site 640513013867 dimer interface [polypeptide binding]; other site 640513013868 ABC-ATPase subunit interface; other site 640513013869 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 640513013870 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 640513013871 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 640513013872 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 640513013873 Walker A/P-loop; other site 640513013874 ATP binding site [chemical binding]; other site 640513013875 Q-loop/lid; other site 640513013876 ABC transporter signature motif; other site 640513013877 Walker B; other site 640513013878 D-loop; other site 640513013879 H-loop/switch region; other site 640513013880 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 640513013881 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 640513013882 Walker A/P-loop; other site 640513013883 ATP binding site [chemical binding]; other site 640513013884 Q-loop/lid; other site 640513013885 ABC transporter signature motif; other site 640513013886 Walker B; other site 640513013887 D-loop; other site 640513013888 H-loop/switch region; other site 640513013889 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 640513013890 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 640513013891 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 640513013892 TM-ABC transporter signature motif; other site 640513013893 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640513013894 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 640513013895 TM-ABC transporter signature motif; other site 640513013896 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640513013897 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 640513013898 dimerization interface [polypeptide binding]; other site 640513013899 ligand binding site [chemical binding]; other site 640513013900 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 640513013901 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 640513013902 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 640513013903 dimerization interface [polypeptide binding]; other site 640513013904 ligand binding site [chemical binding]; other site 640513013905 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 640513013906 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 640513013907 inhibitor-cofactor binding pocket; inhibition site 640513013908 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513013909 catalytic residue [active] 640513013910 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 640513013911 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 640513013912 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 640513013913 DNA binding residues [nucleotide binding] 640513013914 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 640513013915 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 640513013916 cell division protein FtsE; Provisional; Region: PRK10908 640513013917 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 640513013918 Walker A/P-loop; other site 640513013919 ATP binding site [chemical binding]; other site 640513013920 Q-loop/lid; other site 640513013921 ABC transporter signature motif; other site 640513013922 Walker B; other site 640513013923 D-loop; other site 640513013924 H-loop/switch region; other site 640513013925 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 640513013926 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 640513013927 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 640513013928 P loop; other site 640513013929 GTP binding site [chemical binding]; other site 640513013930 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 640513013931 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 640513013932 S-adenosylmethionine binding site [chemical binding]; other site 640513013933 hypothetical protein; Provisional; Region: PRK10910 640513013934 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 640513013935 Predicted membrane protein [Function unknown]; Region: COG3714 640513013936 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 640513013937 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 640513013938 metal-binding site [ion binding] 640513013939 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 640513013940 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 640513013941 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 640513013942 CPxP motif; other site 640513013943 hypothetical protein; Provisional; Region: PRK11212 640513013944 hypothetical protein; Provisional; Region: PRK11615 640513013945 major facilitator superfamily transporter; Provisional; Region: PRK05122 640513013946 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 640513013947 putative substrate translocation pore; other site 640513013948 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 640513013949 Domain of unknown function DUF20; Region: UPF0118; pfam01594 640513013950 holo-(acyl carrier protein) synthase 2; Provisional; Region: PRK10351 640513013951 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 640513013952 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 640513013953 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 640513013954 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 640513013955 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 640513013956 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 640513013957 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 640513013958 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 640513013959 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 640513013960 active site 640513013961 substrate binding site [chemical binding]; other site 640513013962 cosubstrate binding site; other site 640513013963 catalytic site [active] 640513013964 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 640513013965 active site 640513013966 hexamer interface [polypeptide binding]; other site 640513013967 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 640513013968 NAD binding site [chemical binding]; other site 640513013969 substrate binding site [chemical binding]; other site 640513013970 active site 640513013971 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 640513013972 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 640513013973 Ligand binding site; other site 640513013974 Putative Catalytic site; other site 640513013975 DXD motif; other site 640513013976 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 640513013977 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 640513013978 inhibitor-cofactor binding pocket; inhibition site 640513013979 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513013980 catalytic residue [active] 640513013981 Phenolic acid decarboxylase (PAD); Region: PA_decarbox; pfam05870 640513013982 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513013983 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513013984 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 640513013985 dimerization interface [polypeptide binding]; other site 640513013986 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 640513013987 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640513013988 NAD(P) binding site [chemical binding]; other site 640513013989 active site 640513013990 NlpC/P60 family; Region: NLPC_P60; pfam00877 640513013991 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 640513013992 Integral membrane protein TerC family; Region: TerC; cl10468 640513013993 Ion channel; Region: Ion_trans_2; pfam07885 640513013994 Predicted flavoproteins [General function prediction only]; Region: COG2081 640513013995 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640513013996 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 640513013997 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 640513013998 universal stress protein UspB; Provisional; Region: PRK04960 640513013999 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 640513014000 Ligand Binding Site [chemical binding]; other site 640513014001 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 640513014002 S-adenosylmethionine binding site [chemical binding]; other site 640513014003 oligopeptidase A; Provisional; Region: PRK10911 640513014004 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 640513014005 active site 640513014006 Zn binding site [ion binding]; other site 640513014007 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 640513014008 active site 640513014009 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 640513014010 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 640513014011 glutathione reductase; Validated; Region: PRK06116 640513014012 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 640513014013 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640513014014 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 640513014015 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 640513014016 trehalase; Provisional; Region: treF; PRK13270 640513014017 Trehalase; Region: Trehalase; pfam01204 640513014018 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 640513014019 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 640513014020 Coenzyme A binding pocket [chemical binding]; other site 640513014021 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 640513014022 catalytic residue [active] 640513014023 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 640513014024 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 640513014025 DNA binding residues [nucleotide binding] 640513014026 dimerization interface [polypeptide binding]; other site 640513014027 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 640513014028 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 640513014029 NAD(P) binding site [chemical binding]; other site 640513014030 active site 640513014031 Transcriptional regulator [Transcription]; Region: LysR; COG0583 640513014032 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513014033 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 640513014034 putative effector binding pocket; other site 640513014035 putative dimerization interface [polypeptide binding]; other site 640513014036 inner membrane protein YhjD; Region: TIGR00766 640513014037 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 640513014038 metabolite-proton symporter; Region: 2A0106; TIGR00883 640513014039 putative substrate translocation pore; other site 640513014040 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 640513014041 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 640513014042 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; cd01948 640513014043 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640513014044 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 640513014045 substrate binding site [chemical binding]; other site 640513014046 ATP binding site [chemical binding]; other site 640513014047 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 640513014048 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 640513014049 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 640513014050 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 640513014051 putative diguanylate cyclase; Provisional; Region: PRK13561 640513014052 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 640513014053 dimerization interface [polypeptide binding]; other site 640513014054 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 640513014055 I-site; other site 640513014056 active site 640513014057 metal binding site [ion binding]; metal-binding site 640513014058 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; cd01948 640513014059 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 640513014060 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 640513014061 binding surface 640513014062 TPR motif; other site 640513014063 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 640513014064 binding surface 640513014065 TPR motif; other site 640513014066 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 640513014067 endo-1,4-D-glucanase; Provisional; Region: PRK11097 640513014068 cellulose synthase regulator protein; Provisional; Region: PRK11114 640513014069 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 640513014070 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 640513014071 DXD motif; other site 640513014072 PilZ domain; Region: PilZ; pfam07238 640513014073 cell division protein; Provisional; Region: PRK10037 640513014074 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 640513014075 Protein of unknown function (DUF2629); Region: DUF2629; pfam10945 640513014076 cellulose biosynthesis protein BcsE; Provisional; Region: PRK15045 640513014077 Protein of unknown function (DUF2819); Region: DUF2819; pfam10995 640513014078 Protein of unknown function (DUF2636); Region: DUF2636; pfam11120 640513014079 Protein of unknown function (DUF3260); Region: DUF3260; pfam11658 640513014080 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 640513014081 Cellulose synthase subunit D; Region: Cellsynth_D; pfam03500 640513014082 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 640513014083 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 640513014084 TPR motif; other site 640513014085 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 640513014086 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 640513014087 cellulose synthase regulator protein; Provisional; Region: PRK11114 640513014088 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 640513014089 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 640513014090 DXD motif; other site 640513014091 Cellulose synthase-like protein; Region: PLN02893 640513014092 PilZ domain; Region: PilZ; pfam07238 640513014093 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 640513014094 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 640513014095 P-loop; other site 640513014096 Magnesium ion binding site [ion binding]; other site 640513014097 Predicted membrane protein [Function unknown]; Region: COG5373 640513014098 Biotin operon repressor [Transcription]; Region: BirA; COG1654 640513014099 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 640513014100 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 640513014101 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 640513014102 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 640513014103 FAD binding domain; Region: FAD_binding_4; pfam01565 640513014104 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 640513014105 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 640513014106 potassium transporter; Provisional; Region: PRK10750 640513014107 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 640513014108 hypothetical protein; Provisional; Region: PRK11568 640513014109 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 640513014110 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 640513014111 proline dipeptidase; Provisional; Region: PRK13607 640513014112 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 640513014113 active site 640513014114 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 640513014115 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 640513014116 substrate binding site [chemical binding]; other site 640513014117 oxyanion hole (OAH) forming residues; other site 640513014118 trimer interface [polypeptide binding]; other site 640513014119 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 640513014120 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640513014121 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 640513014122 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 640513014123 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 640513014124 dimer interface [polypeptide binding]; other site 640513014125 active site 640513014126 FMN reductase; Validated; Region: fre; PRK08051 640513014127 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 640513014128 FAD binding pocket [chemical binding]; other site 640513014129 FAD binding motif [chemical binding]; other site 640513014130 phosphate binding motif [ion binding]; other site 640513014131 beta-alpha-beta structure motif; other site 640513014132 NAD binding pocket [chemical binding]; other site 640513014133 3-octaprenyl-4-hydroxybenzoate decarboxylase; Provisional; Region: PRK10922 640513014134 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 640513014135 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 640513014136 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 640513014137 active site 640513014138 twin-arginine protein translocation system subunit TatC; Provisional; Region: PRK10921 640513014139 sec-independent translocase; Provisional; Region: PRK01770 640513014140 twin arginine translocase protein A; Provisional; Region: tatA; PRK03554 640513014141 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 640513014142 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 640513014143 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 640513014144 SCP-2 sterol transfer family; Region: SCP2; pfam02036 640513014145 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 640513014146 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 640513014147 S-adenosylmethionine binding site [chemical binding]; other site 640513014148 DNA recombination protein RmuC; Provisional; Region: PRK10361 640513014149 RmuC family; Region: RmuC; pfam02646 640513014150 uridine phosphorylase; Provisional; Region: PRK11178 640513014151 uridine phosphorylase; Region: Uridine-psphlse; TIGR01718 640513014152 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 640513014153 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 640513014154 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 640513014155 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 640513014156 active site turn [active] 640513014157 phosphorylation site [posttranslational modification] 640513014158 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 640513014159 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 640513014160 HPr interaction site; other site 640513014161 glycerol kinase (GK) interaction site [polypeptide binding]; other site 640513014162 active site 640513014163 phosphorylation site [posttranslational modification] 640513014164 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 640513014165 beta-galactosidase; Region: BGL; TIGR03356 640513014166 transcriptional antiterminator BglG; Provisional; Region: PRK09772 640513014167 CAT RNA binding domain; Region: CAT_RBD; smart01061 640513014168 PRD domain; Region: PRD; pfam00874 640513014169 PRD domain; Region: PRD; pfam00874 640513014170 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 640513014171 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 640513014172 THF binding site; other site 640513014173 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 640513014174 substrate binding site [chemical binding]; other site 640513014175 THF binding site; other site 640513014176 zinc-binding site [ion binding]; other site 640513014177 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 640513014178 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513014179 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 640513014180 putative dimerization interface [polypeptide binding]; other site 640513014181 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 640513014182 putative hydrolase; Provisional; Region: PRK10976 640513014183 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 640513014184 active site 640513014185 motif I; other site 640513014186 motif II; other site 640513014187 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 640513014188 lysophospholipase L2; Provisional; Region: PRK10749 640513014189 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 640513014190 homoserine/homoserine lactone efflux protein; Provisional; Region: rhtB; PRK10520 640513014191 threonine efflux system; Provisional; Region: PRK10229 640513014192 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 640513014193 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 640513014194 ATP binding site [chemical binding]; other site 640513014195 putative Mg++ binding site [ion binding]; other site 640513014196 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 640513014197 nucleotide binding region [chemical binding]; other site 640513014198 ATP-binding site [chemical binding]; other site 640513014199 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 640513014200 HRDC domain; Region: HRDC; pfam00570 640513014201 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 640513014202 dimerization interface [polypeptide binding]; other site 640513014203 substrate binding site [chemical binding]; other site 640513014204 active site 640513014205 calcium binding site [ion binding]; other site 640513014206 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 640513014207 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 640513014208 CoenzymeA binding site [chemical binding]; other site 640513014209 subunit interaction site [polypeptide binding]; other site 640513014210 PHB binding site; other site 640513014211 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 640513014212 EamA-like transporter family; Region: EamA; pfam00892 640513014213 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 640513014214 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 640513014215 Cl binding site [ion binding]; other site 640513014216 oligomer interface [polypeptide binding]; other site 640513014217 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 640513014218 Part of AAA domain; Region: AAA_19; pfam13245 640513014219 Family description; Region: UvrD_C_2; pfam13538 640513014220 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 640513014221 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 640513014222 motif II; other site 640513014223 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 640513014224 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 640513014225 active site 640513014226 DNA binding site [nucleotide binding] 640513014227 Int/Topo IB signature motif; other site 640513014228 hypothetical protein; Provisional; Region: PRK10963 640513014229 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 640513014230 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 640513014231 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 640513014232 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 640513014233 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 640513014234 putative iron binding site [ion binding]; other site 640513014235 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 640513014236 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 640513014237 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 640513014238 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 640513014239 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 640513014240 domain interfaces; other site 640513014241 active site 640513014242 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 640513014243 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 640513014244 active site 640513014245 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 640513014246 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 640513014247 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 640513014248 HemY protein N-terminus; Region: HemY_N; pfam07219 640513014249 putative transport protein YifK; Provisional; Region: PRK10746 640513014250 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 640513014251 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 640513014252 putative common antigen polymerase; Provisional; Region: PRK02975 640513014253 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 640513014254 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 640513014255 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 640513014256 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 640513014257 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 640513014258 inhibitor-cofactor binding pocket; inhibition site 640513014259 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513014260 catalytic residue [active] 640513014261 TDP-fucosamine acetyltransferase; Provisional; Region: PRK10975 640513014262 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 640513014263 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 640513014264 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 640513014265 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 640513014266 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 640513014267 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 640513014268 active site 640513014269 homodimer interface [polypeptide binding]; other site 640513014270 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 640513014271 Chain length determinant protein; Region: Wzz; pfam02706 640513014272 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase; Provisional; Region: PRK15119 640513014273 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 640513014274 Mg++ binding site [ion binding]; other site 640513014275 putative catalytic motif [active] 640513014276 substrate binding site [chemical binding]; other site 640513014277 transcription termination factor Rho; Provisional; Region: rho; PRK09376 640513014278 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 640513014279 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 640513014280 RNA binding site [nucleotide binding]; other site 640513014281 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 640513014282 multimer interface [polypeptide binding]; other site 640513014283 Walker A motif; other site 640513014284 ATP binding site [chemical binding]; other site 640513014285 Walker B motif; other site 640513014286 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 640513014287 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 640513014288 catalytic residues [active] 640513014289 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 640513014290 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 640513014291 ATP binding site [chemical binding]; other site 640513014292 Mg++ binding site [ion binding]; other site 640513014293 motif III; other site 640513014294 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 640513014295 nucleotide binding region [chemical binding]; other site 640513014296 ATP-binding site [chemical binding]; other site 640513014297 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 640513014298 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 640513014299 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 640513014300 Part of AAA domain; Region: AAA_19; pfam13245 640513014301 Family description; Region: UvrD_C_2; pfam13538 640513014302 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 640513014303 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 640513014304 peptidyl-prolyl cis-trans isomerase C; Provisional; Region: PRK15441 640513014305 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 640513014306 Predicted transcriptional regulator [Transcription]; Region: COG1959 640513014307 Transcriptional regulator; Region: Rrf2; pfam02082 640513014308 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 640513014309 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 640513014310 S-adenosylmethionine binding site [chemical binding]; other site 640513014311 ketol-acid reductoisomerase; Validated; Region: PRK05225 640513014312 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 640513014313 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 640513014314 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 640513014315 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513014316 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 640513014317 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 640513014318 putative dimerization interface [polypeptide binding]; other site 640513014319 threonine dehydratase; Reviewed; Region: PRK09224 640513014320 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 640513014321 tetramer interface [polypeptide binding]; other site 640513014322 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513014323 catalytic residue [active] 640513014324 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 640513014325 putative Ile/Val binding site [chemical binding]; other site 640513014326 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 640513014327 putative Ile/Val binding site [chemical binding]; other site 640513014328 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 640513014329 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 640513014330 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 640513014331 homodimer interface [polypeptide binding]; other site 640513014332 substrate-cofactor binding pocket; other site 640513014333 catalytic residue [active] 640513014334 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 640513014335 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 640513014336 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 640513014337 PYR/PP interface [polypeptide binding]; other site 640513014338 dimer interface [polypeptide binding]; other site 640513014339 TPP binding site [chemical binding]; other site 640513014340 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 640513014341 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 640513014342 TPP-binding site [chemical binding]; other site 640513014343 dimer interface [polypeptide binding]; other site 640513014344 putative ATP-dependent protease; Provisional; Region: PRK09862 640513014345 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 640513014346 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 640513014347 Walker A motif; other site 640513014348 ATP binding site [chemical binding]; other site 640513014349 Walker B motif; other site 640513014350 arginine finger; other site 640513014351 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 640513014352 hypothetical protein; Provisional; Region: PRK11027 640513014353 transcriptional regulator HdfR; Provisional; Region: PRK03601 640513014354 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513014355 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 640513014356 dimerization interface [polypeptide binding]; other site 640513014357 glutamate racemase; Provisional; Region: PRK00865 640513014358 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 640513014359 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 640513014360 N-terminal plug; other site 640513014361 ligand-binding site [chemical binding]; other site 640513014362 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 640513014363 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 640513014364 S-adenosylmethionine binding site [chemical binding]; other site 640513014365 hypothetical protein; Provisional; Region: PRK11056 640513014366 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 640513014367 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 640513014368 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 640513014369 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 640513014370 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 640513014371 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 640513014372 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 640513014373 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 640513014374 dimerization interface [polypeptide binding]; other site 640513014375 argininosuccinate lyase; Provisional; Region: PRK04833 640513014376 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 640513014377 active sites [active] 640513014378 tetramer interface [polypeptide binding]; other site 640513014379 AAK_NAGK-NC: N-Acetyl-L-glutamate kinase - noncyclic (NAGK-NC) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of microbial arginine biosynthesis using the acetylated, noncyclic route of...; Region: AAK_NAGK-NC; cd04249 640513014380 nucleotide binding site [chemical binding]; other site 640513014381 N-acetyl-L-glutamate binding site [chemical binding]; other site 640513014382 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 640513014383 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 640513014384 acetylornithine deacetylase; Provisional; Region: PRK05111 640513014385 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 640513014386 metal binding site [ion binding]; metal-binding site 640513014387 putative dimer interface [polypeptide binding]; other site 640513014388 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 640513014389 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 640513014390 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 640513014391 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513014392 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 640513014393 active site 640513014394 P-loop; other site 640513014395 phosphorylation site [posttranslational modification] 640513014396 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 640513014397 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 640513014398 FeS/SAM binding site; other site 640513014399 pyruvate formate lyase II activase; Provisional; Region: PRK10076 640513014400 putative formate acetyltransferase 2; Provisional; Region: pflD; PRK09983 640513014401 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 640513014402 dimer interface [polypeptide binding]; other site 640513014403 active site 640513014404 glycine loop; other site 640513014405 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 640513014406 active site 640513014407 P-loop; other site 640513014408 phosphorylation site [posttranslational modification] 640513014409 putative PTS system fructose-like transporter subunit EIIC; Provisional; Region: PRK10478 640513014410 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 640513014411 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 640513014412 dimerization domain swap beta strand [polypeptide binding]; other site 640513014413 regulatory protein interface [polypeptide binding]; other site 640513014414 active site 640513014415 regulatory phosphorylation site [posttranslational modification]; other site 640513014416 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 640513014417 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 640513014418 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 640513014419 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 640513014420 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 640513014421 active site 640513014422 phosphorylation site [posttranslational modification] 640513014423 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 640513014424 active site 640513014425 intersubunit interactions; other site 640513014426 catalytic residue [active] 640513014427 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 640513014428 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 640513014429 dimer interface [polypeptide binding]; other site 640513014430 active site 640513014431 metal binding site [ion binding]; metal-binding site 640513014432 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 640513014433 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 640513014434 heme binding site [chemical binding]; other site 640513014435 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 640513014436 heme binding site [chemical binding]; other site 640513014437 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 640513014438 FAD binding site [chemical binding]; other site 640513014439 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 640513014440 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 640513014441 putative catalytic residues [active] 640513014442 putative nucleotide binding site [chemical binding]; other site 640513014443 putative aspartate binding site [chemical binding]; other site 640513014444 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 640513014445 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 640513014446 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 640513014447 cystathionine gamma-synthase; Provisional; Region: PRK08045 640513014448 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 640513014449 homodimer interface [polypeptide binding]; other site 640513014450 substrate-cofactor binding pocket; other site 640513014451 pyridoxal 5'-phosphate binding site [chemical binding]; other site 640513014452 catalytic residue [active] 640513014453 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 640513014454 dimerization interface [polypeptide binding]; other site 640513014455 DNA binding site [nucleotide binding] 640513014456 corepressor binding sites; other site 640513014457 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 640513014458 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 640513014459 primosome assembly protein PriA; Validated; Region: PRK05580 640513014460 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 640513014461 ATP binding site [chemical binding]; other site 640513014462 putative Mg++ binding site [ion binding]; other site 640513014463 helicase superfamily c-terminal domain; Region: HELICc; smart00490 640513014464 ATP-binding site [chemical binding]; other site 640513014465 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640513014466 DNA binding site [nucleotide binding] 640513014467 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 640513014468 domain linker motif; other site 640513014469 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 640513014470 dimerization interface [polypeptide binding]; other site 640513014471 ligand binding site [chemical binding]; other site 640513014472 essential cell division protein FtsN; Provisional; Region: PRK10927 640513014473 cell division protein FtsN; Provisional; Region: PRK12757 640513014474 Sporulation related domain; Region: SPOR; cl10051 640513014475 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 640513014476 active site 640513014477 HslU subunit interaction site [polypeptide binding]; other site 640513014478 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 640513014479 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 640513014480 Walker A motif; other site 640513014481 ATP binding site [chemical binding]; other site 640513014482 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 640513014483 Walker B motif; other site 640513014484 arginine finger; other site 640513014485 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 640513014486 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Region: menA; TIGR00751 640513014487 UbiA prenyltransferase family; Region: UbiA; pfam01040 640513014488 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 640513014489 septal ring assembly protein ZapB; Provisional; Region: PRK15422 640513014490 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 640513014491 amphipathic channel; other site 640513014492 Asn-Pro-Ala signature motifs; other site 640513014493 glycerol kinase; Provisional; Region: glpK; PRK00047 640513014494 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 640513014495 N- and C-terminal domain interface [polypeptide binding]; other site 640513014496 active site 640513014497 MgATP binding site [chemical binding]; other site 640513014498 catalytic site [active] 640513014499 metal binding site [ion binding]; metal-binding site 640513014500 glycerol binding site [chemical binding]; other site 640513014501 homotetramer interface [polypeptide binding]; other site 640513014502 homodimer interface [polypeptide binding]; other site 640513014503 FBP binding site [chemical binding]; other site 640513014504 protein IIAGlc interface [polypeptide binding]; other site 640513014505 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 640513014506 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 640513014507 putative active site [active] 640513014508 ferredoxin-NADP reductase; Provisional; Region: PRK10926 640513014509 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 640513014510 FAD binding pocket [chemical binding]; other site 640513014511 FAD binding motif [chemical binding]; other site 640513014512 phosphate binding motif [ion binding]; other site 640513014513 beta-alpha-beta structure motif; other site 640513014514 NAD binding pocket [chemical binding]; other site 640513014515 Predicted membrane protein [Function unknown]; Region: COG3152 640513014516 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 640513014517 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 640513014518 triosephosphate isomerase; Provisional; Region: PRK14567 640513014519 substrate binding site [chemical binding]; other site 640513014520 dimer interface [polypeptide binding]; other site 640513014521 catalytic triad [active] 640513014522 transmembrane helices; other site 640513014523 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 640513014524 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 640513014525 CDP-diacylglycerol pyrophosphatase; Provisional; Region: PRK05471 640513014526 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 640513014527 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 640513014528 substrate binding pocket [chemical binding]; other site 640513014529 membrane-bound complex binding site; other site 640513014530 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 640513014531 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 640513014532 active site 640513014533 ADP/pyrophosphate binding site [chemical binding]; other site 640513014534 dimerization interface [polypeptide binding]; other site 640513014535 allosteric effector site; other site 640513014536 fructose-1,6-bisphosphate binding site; other site 640513014537 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 640513014538 ferrous iron efflux protein F; Reviewed; Region: fieF; PRK09509 640513014539 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 640513014540 dimer interface [polypeptide binding]; other site 640513014541 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 640513014542 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 640513014543 active site 640513014544 intermolecular recognition site; other site 640513014545 dimerization interface [polypeptide binding]; other site 640513014546 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 640513014547 DNA binding site [nucleotide binding] 640513014548 two-component sensor protein; Provisional; Region: cpxA; PRK09470 640513014549 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 640513014550 dimerization interface [polypeptide binding]; other site 640513014551 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 640513014552 dimer interface [polypeptide binding]; other site 640513014553 phosphorylation site [posttranslational modification] 640513014554 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 640513014555 ATP binding site [chemical binding]; other site 640513014556 Mg2+ binding site [ion binding]; other site 640513014557 G-X-G motif; other site 640513014558 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 640513014559 MOSC domain; Region: MOSC; pfam03473 640513014560 3-alpha domain; Region: 3-alpha; pfam03475 640513014561 superoxide dismutase; Provisional; Region: PRK10925 640513014562 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 640513014563 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 640513014564 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 640513014565 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 640513014566 transcriptional activator RhaR; Provisional; Region: PRK13502 640513014567 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640513014568 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513014569 transcriptional activator RhaS; Provisional; Region: PRK13503 640513014570 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 640513014571 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513014572 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 640513014573 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 640513014574 N- and C-terminal domain interface [polypeptide binding]; other site 640513014575 active site 640513014576 putative catalytic site [active] 640513014577 metal binding site [ion binding]; metal-binding site 640513014578 ATP binding site [chemical binding]; other site 640513014579 rhamnulokinase; Provisional; Region: rhaB; PRK10640 640513014580 carbohydrate binding site [chemical binding]; other site 640513014581 L-rhamnose isomerase; Provisional; Region: PRK01076 640513014582 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 640513014583 rhamnose ABC transporter, rhamnose-binding protein; Region: RhaS; TIGR02637 640513014584 ligand binding site [chemical binding]; other site 640513014585 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 640513014586 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640513014587 Walker A/P-loop; other site 640513014588 ATP binding site [chemical binding]; other site 640513014589 Q-loop/lid; other site 640513014590 ABC transporter signature motif; other site 640513014591 Walker B; other site 640513014592 D-loop; other site 640513014593 H-loop/switch region; other site 640513014594 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640513014595 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640513014596 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 640513014597 TM-ABC transporter signature motif; other site 640513014598 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 640513014599 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640513014600 TM-ABC transporter signature motif; other site 640513014601 lactaldehyde reductase; Region: lactal_redase; TIGR02638 640513014602 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 640513014603 dimer interface [polypeptide binding]; other site 640513014604 active site 640513014605 metal binding site [ion binding]; metal-binding site 640513014606 L-rhamnose 1-epimerase; Region: YiiL_rotase; TIGR02625 640513014607 galactoside permease; Reviewed; Region: lacY; PRK09528 640513014608 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 640513014609 putative substrate translocation pore; other site 640513014610 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 640513014611 Melibiase; Region: Melibiase; pfam02065 640513014612 Transcriptional regulators [Transcription]; Region: PurR; COG1609 640513014613 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640513014614 DNA binding site [nucleotide binding] 640513014615 domain linker motif; other site 640513014616 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 640513014617 ligand binding site [chemical binding]; other site 640513014618 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 640513014619 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 640513014620 non-specific DNA binding site [nucleotide binding]; other site 640513014621 salt bridge; other site 640513014622 sequence-specific DNA binding site [nucleotide binding]; other site 640513014623 Cupin domain; Region: Cupin_2; cl17218 640513014624 AzlC protein; Region: AzlC; cl00570 640513014625 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 640513014626 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 640513014627 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 640513014628 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 640513014629 molybdopterin cofactor binding site; other site 640513014630 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 640513014631 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 640513014632 molybdopterin cofactor binding site; other site 640513014633 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 640513014634 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 640513014635 formate dehydrogenase-O subunit gamma; Provisional; Region: PRK10639 640513014636 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 640513014637 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 640513014638 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 640513014639 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 640513014640 oligomeric interface; other site 640513014641 putative active site [active] 640513014642 homodimer interface [polypeptide binding]; other site 640513014643 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 640513014644 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 640513014645 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 640513014646 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 640513014647 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 640513014648 Coenzyme A binding pocket [chemical binding]; other site 640513014649 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 640513014650 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 640513014651 putative active site [active] 640513014652 dimerization interface [polypeptide binding]; other site 640513014653 putative tRNAtyr binding site [nucleotide binding]; other site 640513014654 hypothetical protein; Reviewed; Region: PRK01637 640513014655 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 640513014656 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 640513014657 motif II; other site 640513014658 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 640513014659 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 640513014660 putative DNA binding site [nucleotide binding]; other site 640513014661 putative Zn2+ binding site [ion binding]; other site 640513014662 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 640513014663 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640513014664 Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_B; cd01945 640513014665 substrate binding site [chemical binding]; other site 640513014666 ATP binding site [chemical binding]; other site 640513014667 NADH-dependent gamma-hydroxybutyrate dehydrogenase; Provisional; Region: PRK15461 640513014668 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 640513014669 Class I aldolases; Region: Aldolase_Class_I; cl17187 640513014670 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 640513014671 dimerization interface [polypeptide binding]; other site 640513014672 putative active cleft [active] 640513014673 alpha-glucosidase; Provisional; Region: PRK10426 640513014674 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 640513014675 YihQ is a bacterial alpha-glucosidase with a conserved glycosyl hydrolase family 31 (GH31) domain that catalyzes the release of an alpha-glucosyl residue from the non-reducing end of alpha-glucoside substrates such as alpha-glucosyl fluoride. Orthologs...; Region: GH31_glucosidase_YihQ; cd06594 640513014676 putative active site [active] 640513014677 putative catalytic site [active] 640513014678 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 640513014679 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 640513014680 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 640513014681 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 640513014682 putative substrate translocation pore; other site 640513014683 outer membrane porin L; Provisional; Region: ompL; PRK09980 640513014684 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 640513014685 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 640513014686 G1 box; other site 640513014687 putative GEF interaction site [polypeptide binding]; other site 640513014688 GTP/Mg2+ binding site [chemical binding]; other site 640513014689 Switch I region; other site 640513014690 G2 box; other site 640513014691 G3 box; other site 640513014692 Switch II region; other site 640513014693 G4 box; other site 640513014694 G5 box; other site 640513014695 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 640513014696 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 640513014697 glutamine synthetase; Provisional; Region: glnA; PRK09469 640513014698 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 640513014699 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 640513014700 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 640513014701 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 640513014702 putative active site [active] 640513014703 heme pocket [chemical binding]; other site 640513014704 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 640513014705 dimer interface [polypeptide binding]; other site 640513014706 phosphorylation site [posttranslational modification] 640513014707 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 640513014708 ATP binding site [chemical binding]; other site 640513014709 Mg2+ binding site [ion binding]; other site 640513014710 G-X-G motif; other site 640513014711 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 640513014712 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 640513014713 active site 640513014714 phosphorylation site [posttranslational modification] 640513014715 intermolecular recognition site; other site 640513014716 dimerization interface [polypeptide binding]; other site 640513014717 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 640513014718 Walker A motif; other site 640513014719 ATP binding site [chemical binding]; other site 640513014720 Walker B motif; other site 640513014721 arginine finger; other site 640513014722 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 640513014723 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 640513014724 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 640513014725 FeS/SAM binding site; other site 640513014726 HemN C-terminal domain; Region: HemN_C; pfam06969 640513014727 Der GTPase activator; Provisional; Region: PRK05244 640513014728 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 640513014729 G1 box; other site 640513014730 GTP/Mg2+ binding site [chemical binding]; other site 640513014731 Switch I region; other site 640513014732 G2 box; other site 640513014733 G3 box; other site 640513014734 Switch II region; other site 640513014735 G4 box; other site 640513014736 G5 box; other site 640513014737 DNA polymerase I; Provisional; Region: PRK05755 640513014738 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 640513014739 active site 640513014740 metal binding site 1 [ion binding]; metal-binding site 640513014741 putative 5' ssDNA interaction site; other site 640513014742 metal binding site 3; metal-binding site 640513014743 metal binding site 2 [ion binding]; metal-binding site 640513014744 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 640513014745 putative DNA binding site [nucleotide binding]; other site 640513014746 putative metal binding site [ion binding]; other site 640513014747 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 640513014748 active site 640513014749 catalytic site [active] 640513014750 substrate binding site [chemical binding]; other site 640513014751 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 640513014752 active site 640513014753 DNA binding site [nucleotide binding] 640513014754 catalytic site [active] 640513014755 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 640513014756 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 640513014757 putative acyl-acceptor binding pocket; other site 640513014758 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 640513014759 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 640513014760 catalytic residues [active] 640513014761 hinge region; other site 640513014762 alpha helical domain; other site 640513014763 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 640513014764 serine/threonine protein kinase; Provisional; Region: PRK11768 640513014765 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 640513014766 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 640513014767 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 640513014768 GTP binding site; other site 640513014769 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 640513014770 Walker A motif; other site 640513014771 Transcriptional regulators [Transcription]; Region: FadR; COG2186 640513014772 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 640513014773 DNA-binding site [nucleotide binding]; DNA binding site 640513014774 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 640513014775 putative transporter; Provisional; Region: PRK10504 640513014776 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 640513014777 putative substrate translocation pore; other site 640513014778 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 640513014779 transcriptional repressor RbsR; Provisional; Region: PRK10423 640513014780 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 640513014781 DNA binding site [nucleotide binding] 640513014782 domain linker motif; other site 640513014783 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 640513014784 dimerization interface [polypeptide binding]; other site 640513014785 ligand binding site [chemical binding]; other site 640513014786 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 640513014787 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 640513014788 substrate binding site [chemical binding]; other site 640513014789 dimer interface [polypeptide binding]; other site 640513014790 ATP binding site [chemical binding]; other site 640513014791 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 640513014792 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 640513014793 ligand binding site [chemical binding]; other site 640513014794 dimerization interface [polypeptide binding]; other site 640513014795 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 640513014796 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 640513014797 TM-ABC transporter signature motif; other site 640513014798 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 640513014799 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 640513014800 Walker A/P-loop; other site 640513014801 ATP binding site [chemical binding]; other site 640513014802 Q-loop/lid; other site 640513014803 ABC transporter signature motif; other site 640513014804 Walker B; other site 640513014805 D-loop; other site 640513014806 H-loop/switch region; other site 640513014807 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 640513014808 D-ribose pyranase; Provisional; Region: PRK11797 640513014809 potassium transport protein Kup; Provisional; Region: trkD; PRK10745 640513014810 potassium uptake protein; Region: kup; TIGR00794 640513014811 regulatory ATPase RavA; Provisional; Region: PRK13531 640513014812 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 640513014813 Walker A motif; other site 640513014814 ATP binding site [chemical binding]; other site 640513014815 Walker B motif; other site 640513014816 arginine finger; other site 640513014817 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 640513014818 hypothetical protein; Provisional; Region: yieM; PRK10997 640513014819 VWA YIEM type: 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...; Region: VWA_YIEM_type; cd01462 640513014820 metal ion-dependent adhesion site (MIDAS); other site 640513014821 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 640513014822 dimer interface [polypeptide binding]; other site 640513014823 active site 640513014824 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 640513014825 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 640513014826 putative DNA binding site [nucleotide binding]; other site 640513014827 putative Zn2+ binding site [ion binding]; other site 640513014828 AsnC family; Region: AsnC_trans_reg; pfam01037 640513014829 FMN-binding protein MioC; Provisional; Region: PRK09004 640513014830 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 640513014831 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 640513014832 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 640513014833 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 640513014834 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 640513014835 F0F1 ATP synthase subunit I; Validated; Region: PRK08049 640513014836 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 640513014837 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 640513014838 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 640513014839 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 640513014840 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 640513014841 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 640513014842 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 640513014843 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 640513014844 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 640513014845 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 640513014846 beta subunit interaction interface [polypeptide binding]; other site 640513014847 Walker A motif; other site 640513014848 ATP binding site [chemical binding]; other site 640513014849 Walker B motif; other site 640513014850 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 640513014851 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 640513014852 core domain interface [polypeptide binding]; other site 640513014853 delta subunit interface [polypeptide binding]; other site 640513014854 epsilon subunit interface [polypeptide binding]; other site 640513014855 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 640513014856 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 640513014857 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 640513014858 alpha subunit interaction interface [polypeptide binding]; other site 640513014859 Walker A motif; other site 640513014860 ATP binding site [chemical binding]; other site 640513014861 Walker B motif; other site 640513014862 inhibitor binding site; inhibition site 640513014863 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 640513014864 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 640513014865 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 640513014866 gamma subunit interface [polypeptide binding]; other site 640513014867 epsilon subunit interface [polypeptide binding]; other site 640513014868 LBP interface [polypeptide binding]; other site 640513014869 Right handed beta helix region; Region: Beta_helix; pfam13229 640513014870 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 640513014871 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 640513014872 Substrate binding site; other site 640513014873 Mg++ binding site; other site 640513014874 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 640513014875 active site 640513014876 substrate binding site [chemical binding]; other site 640513014877 CoA binding site [chemical binding]; other site 640513014878 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 640513014879 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 640513014880 glutaminase active site [active] 640513014881 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 640513014882 dimer interface [polypeptide binding]; other site 640513014883 active site 640513014884 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 640513014885 dimer interface [polypeptide binding]; other site 640513014886 active site 640513014887 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 640513014888 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 640513014889 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 640513014890 dimer interface [polypeptide binding]; other site 640513014891 conserved gate region; other site 640513014892 putative PBP binding loops; other site 640513014893 ABC-ATPase subunit interface; other site 640513014894 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 640513014895 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 640513014896 dimer interface [polypeptide binding]; other site 640513014897 conserved gate region; other site 640513014898 putative PBP binding loops; other site 640513014899 ABC-ATPase subunit interface; other site 640513014900 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 640513014901 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 640513014902 Walker A/P-loop; other site 640513014903 ATP binding site [chemical binding]; other site 640513014904 Q-loop/lid; other site 640513014905 ABC transporter signature motif; other site 640513014906 Walker B; other site 640513014907 D-loop; other site 640513014908 H-loop/switch region; other site 640513014909 transcriptional regulator PhoU; Provisional; Region: PRK11115 640513014910 PhoU domain; Region: PhoU; pfam01895 640513014911 PhoU domain; Region: PhoU; pfam01895 640513014912 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 640513014913 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 640513014914 active site 640513014915 motif I; other site 640513014916 motif II; other site 640513014917 Predicted flavoprotein [General function prediction only]; Region: COG0431 640513014918 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 640513014919 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 640513014920 multidrug efflux system protein MdtL; Provisional; Region: PRK10473 640513014921 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 640513014922 putative substrate translocation pore; other site 640513014923 RHS Repeat; Region: RHS_repeat; pfam05593 640513014924 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 640513014925 RHS Repeat; Region: RHS_repeat; pfam05593 640513014926 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 640513014927 RHS Repeat; Region: RHS_repeat; pfam05593 640513014928 RHS protein; Region: RHS; pfam03527 640513014929 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 640513014930 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 640513014931 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 640513014932 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 640513014933 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 640513014934 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 640513014935 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 640513014936 trmE is a tRNA modification GTPase; Region: trmE; cd04164 640513014937 G1 box; other site 640513014938 GTP/Mg2+ binding site [chemical binding]; other site 640513014939 Switch I region; other site 640513014940 G2 box; other site 640513014941 Switch II region; other site 640513014942 G3 box; other site 640513014943 G4 box; other site 640513014944 G5 box; other site 640513014945 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 640513014946 membrane protein insertase; Provisional; Region: PRK01318 640513014947 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 640513014948 hypothetical protein; Validated; Region: PRK00041 640513014949 ribonuclease P; Reviewed; Region: rnpA; PRK01732 640513014950 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 640513014951 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 640513014952 tail protein; Provisional; Region: D; PHA02561 640513014953 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 640513014954 Phage tail tube protein FII; Region: Phage_tube; pfam04985 640513014955 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 640513014956 Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits; Region: iSH2_PI3K_IA_R; cl17108 640513014957 heterodimer interface [polypeptide binding]; other site 640513014958 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 640513014959 Phage protein U [General function prediction only]; Region: COG3499 640513014960 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 640513014961 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 640513014962 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 640513014963 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 640513014964 Phage T4 tail fibre; Region: Phage_T4_gp36; pfam03903 640513014965 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 640513014966 Baseplate J-like protein; Region: Baseplate_J; cl01294 640513014967 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 640513014968 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 640513014969 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 640513014970 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 640513014971 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 640513014972 Protein of unknown function (DUF2514); Region: DUF2514; pfam10721 640513014973 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 640513014974 catalytic residues [active] 640513014975 Phage holin family (Lysis protein S); Region: Phage_holin_3; cl04938 640513014976 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 640513014977 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 640513014978 terminase endonuclease subunit; Provisional; Region: M; PHA02537 640513014979 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 640513014980 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 640513014981 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 640513014982 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 640513014983 terminase ATPase subunit; Provisional; Region: P; PHA02535 640513014984 Phage-related protein [Function unknown]; Region: COG4695; cl01923 640513014985 Phage portal protein; Region: Phage_portal; pfam04860 640513014986 Domain of unknown function (DUF955); Region: DUF955; cl01076 640513014987 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 640513014988 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 640513014989 Ligand Binding Site [chemical binding]; other site 640513014990 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 640513014991 Active Sites [active] 640513014992 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 640513014993 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 640513014994 non-specific DNA binding site [nucleotide binding]; other site 640513014995 salt bridge; other site 640513014996 sequence-specific DNA binding site [nucleotide binding]; other site 640513014997 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 640513014998 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 640513014999 Dimer interface [polypeptide binding]; other site 640513015000 BRCT sequence motif; other site 640513015001 integrase; Provisional; Region: int; PHA02601 640513015002 Phage HP1 integrase, C-terminal catalytic domain. Bacteriophage HP1 and related integrases are found in eubacteria, plasmids and temperate bacteriophages of the P2 family. They belong to the DNA breaking-rejoining enzyme superfamily, which includes...; Region: HP1_INT_C; cd00797 640513015003 dimer interface [polypeptide binding]; other site 640513015004 active site 640513015005 catalytic residues [active] 640513015006 Int/Topo IB signature motif; other site