-- dump date 20140619_070753 -- class Genbank::misc_feature -- table misc_feature_note -- id note 935296000001 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 935296000002 Ligand Binding Site [chemical binding]; other site 935296000003 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 935296000004 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 935296000005 tandem repeat interface [polypeptide binding]; other site 935296000006 oligomer interface [polypeptide binding]; other site 935296000007 active site residues [active] 935296000008 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 935296000009 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 935296000010 catalytic residues [active] 935296000011 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 935296000012 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]; Region: TEF1; COG5256 935296000013 Staphylococcal nuclease homologues; Region: SNc; smart00318 935296000014 Staphylococcal nuclease homologue; Region: SNase; pfam00565 935296000015 histone-like DNA-binding protein HU; Region: HU; cd13831 935296000016 dimer interface [polypeptide binding]; other site 935296000017 DNA binding site [nucleotide binding] 935296000018 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 935296000019 non-specific DNA binding site [nucleotide binding]; other site 935296000020 salt bridge; other site 935296000021 sequence-specific DNA binding site [nucleotide binding]; other site 935296000022 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 935296000023 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 935296000024 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 935296000025 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 935296000026 Walker A motif; other site 935296000027 ATP binding site [chemical binding]; other site 935296000028 Walker B motif; other site 935296000029 arginine finger; other site 935296000030 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 935296000031 Mrr N-terminal domain; Region: Mrr_N; pfam14338 935296000032 DNA methylase; Region: N6_N4_Mtase; pfam01555 935296000033 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 935296000034 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 935296000035 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 935296000036 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 935296000037 substrate binding pocket [chemical binding]; other site 935296000038 dimer interface [polypeptide binding]; other site 935296000039 inhibitor binding site; inhibition site 935296000040 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 935296000041 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 935296000042 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 935296000043 P-loop; other site 935296000044 Magnesium ion binding site [ion binding]; other site 935296000045 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 935296000046 ParB-like nuclease domain; Region: ParB; smart00470 935296000047 KorB domain; Region: KorB; pfam08535 935296000048 Winged helix-turn helix; Region: HTH_43; cl11547 935296000049 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 935296000050 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 935296000051 DNA binding site [nucleotide binding] 935296000052 substrate interaction site [chemical binding]; other site 935296000053 DNA topoisomerase III; Provisional; Region: PRK07726 935296000054 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 935296000055 active site 935296000056 putative interdomain interaction site [polypeptide binding]; other site 935296000057 putative metal-binding site [ion binding]; other site 935296000058 putative nucleotide binding site [chemical binding]; other site 935296000059 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 935296000060 domain I; other site 935296000061 DNA binding groove [nucleotide binding] 935296000062 phosphate binding site [ion binding]; other site 935296000063 domain II; other site 935296000064 domain III; other site 935296000065 nucleotide binding site [chemical binding]; other site 935296000066 catalytic site [active] 935296000067 domain IV; other site 935296000068 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 935296000069 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 935296000070 Putative helicase; Region: TraI_2; pfam07514 935296000071 DNA packaging tegument protein UL25; Provisional; Region: PHA03249 935296000072 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 935296000073 AAA-like domain; Region: AAA_10; pfam12846 935296000074 cellulose synthase-like protein; Region: PLN02248 935296000075 Domain of unknown function (DUF4400); Region: DUF4400; cl14023 935296000076 TraL protein; Region: TraL; cl06278 935296000077 TraE protein; Region: TraE; cl05060 935296000078 TraK protein; Region: TraK; cl05878 935296000079 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 935296000080 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 935296000081 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 935296000082 Domain of unknown function (DUF4165); Region: DUF4165; pfam13752 935296000083 Bacterial Ig-like domain (group 3); Region: Big_3_2; pfam12245 935296000084 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 935296000085 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 935296000086 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 935296000087 dimerization domain [polypeptide binding]; other site 935296000088 dimer interface [polypeptide binding]; other site 935296000089 catalytic residues [active] 935296000090 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 935296000091 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 935296000092 Domain of unknown function DUF87; Region: DUF87; cl19135 935296000093 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 935296000094 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 935296000095 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 935296000096 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; pfam09673 935296000097 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 935296000098 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 935296000099 TraU protein; Region: TraU; pfam06834 935296000100 conjugal transfer mating pair stabilization protein TraN; Provisional; Region: PRK14876 935296000101 Type-1V conjugative transfer system mating pair stabilisation; Region: TraN; cl19475 935296000102 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 935296000103 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 935296000104 Walker A motif; other site 935296000105 ATP binding site [chemical binding]; other site 935296000106 Walker B motif; other site 935296000107 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 935296000108 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 935296000109 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 935296000110 dimer interface [polypeptide binding]; other site 935296000111 ssDNA binding site [nucleotide binding]; other site 935296000112 tetramer (dimer of dimers) interface [polypeptide binding]; other site 935296000113 RecT family; Region: RecT; cl04285 935296000114 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 935296000115 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 935296000116 Granule antigen protein (GRA6); Region: GRA6; pfam05084 935296000117 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 935296000118 Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]; Region: CobT; COG4547 935296000119 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 935296000120 metal ion-dependent adhesion site (MIDAS); other site 935296000121 DNA methylase; Region: N6_N4_Mtase; cl17433 935296000122 Dam-replacing family; Region: DRP; pfam06044 935296000123 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 935296000124 catalytic loop [active] 935296000125 iron binding site [ion binding]; other site 935296000126 Protein of unknown function (DUF475); Region: DUF475; cl17481 935296000127 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 935296000128 cofactor binding site; other site 935296000129 DNA binding site [nucleotide binding] 935296000130 substrate interaction site [chemical binding]; other site 935296000131 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 935296000132 Ligand Binding Site [chemical binding]; other site 935296000133 HD domain; Region: HD_3; cl17350 935296000134 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; pfam08273 935296000135 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 935296000136 active site 935296000137 metal binding site [ion binding]; metal-binding site 935296000138 interdomain interaction site; other site 935296000139 organizer of macrodomain of Terminus of chromosome; Region: MatP; cl11476 935296000140 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 935296000141 RHS Repeat; Region: RHS_repeat; pfam05593 935296000142 RHS Repeat; Region: RHS_repeat; pfam05593 935296000143 RHS Repeat; Region: RHS_repeat; pfam05593 935296000144 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 935296000145 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 935296000146 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 935296000147 RHS Repeat; Region: RHS_repeat; pfam05593 935296000148 RHS protein; Region: RHS; pfam03527 935296000149 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 935296000150 Bacterial EndoU nuclease; Region: EndoU_bacteria; pfam14436 935296000151 Dual specificity phosphatases (DSP); Ser/Thr and Tyr protein phosphatases. Structurally similar to tyrosine-specific phosphatases but with a shallower active site cleft and a distinctive active site signature motif, HCxxGxxR. Characterized as VHR- or...; Region: DSPc; cl00053 935296000152 active site 935296000153 catalytic residues [active] 935296000154 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 935296000155 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 935296000156 active site 935296000157 DNA binding site [nucleotide binding] 935296000158 Int/Topo IB signature motif; other site 935296000159 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 935296000160 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 935296000161 active site 935296000162 catalytic site [active] 935296000163 substrate binding site [chemical binding]; other site 935296000164 putative transcriptional regulator MerR; Provisional; Region: PRK13752 935296000165 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 935296000166 DNA binding residues [nucleotide binding] 935296000167 dimer interface [polypeptide binding]; other site 935296000168 mercury binding site [ion binding]; other site 935296000169 putative mercuric transport protein; Provisional; Region: PRK13751 935296000170 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 935296000171 metal-binding site [ion binding] 935296000172 putative mercury transport protein MerC; Provisional; Region: PRK13755 935296000173 putative mercuric reductase; Provisional; Region: PRK13748 935296000174 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 935296000175 metal-binding site [ion binding] 935296000176 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935296000177 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 935296000178 transcriptional regulator MerD; Provisional; Region: PRK13749 935296000179 Helix-Turn-Helix DNA binding domain of the MerD transcription regulator; Region: HTH_MerD; cd01111 935296000180 DNA binding residues [nucleotide binding] 935296000181 putative dimer interface [polypeptide binding]; other site 935296000182 putative mercury resistance protein; Provisional; Region: PRK13747 935296000183 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 935296000184 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 935296000185 multiple promoter invertase; Provisional; Region: mpi; PRK13413 935296000186 catalytic residues [active] 935296000187 catalytic nucleophile [active] 935296000188 Presynaptic Site I dimer interface [polypeptide binding]; other site 935296000189 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 935296000190 Synaptic Flat tetramer interface [polypeptide binding]; other site 935296000191 Synaptic Site I dimer interface [polypeptide binding]; other site 935296000192 DNA binding site [nucleotide binding] 935296000193 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cd00569 935296000194 DNA-binding interface [nucleotide binding]; DNA binding site 935296000195 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 935296000196 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 935296000197 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 935296000198 Transposase; Region: DEDD_Tnp_IS110; pfam01548 935296000199 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 935296000200 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 935296000201 multiple promoter invertase; Provisional; Region: mpi; PRK13413 935296000202 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 935296000203 catalytic residues [active] 935296000204 catalytic nucleophile [active] 935296000205 Presynaptic Site I dimer interface [polypeptide binding]; other site 935296000206 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 935296000207 Synaptic Flat tetramer interface [polypeptide binding]; other site 935296000208 Synaptic Site I dimer interface [polypeptide binding]; other site 935296000209 DNA binding site [nucleotide binding] 935296000210 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cl17393 935296000211 beta-lactamase TEM; Provisional; Region: PRK15442 935296000212 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 935296000213 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 935296000214 multiple promoter invertase; Provisional; Region: mpi; PRK13413 935296000215 catalytic residues [active] 935296000216 catalytic nucleophile [active] 935296000217 Presynaptic Site I dimer interface [polypeptide binding]; other site 935296000218 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 935296000219 Synaptic Flat tetramer interface [polypeptide binding]; other site 935296000220 Synaptic Site I dimer interface [polypeptide binding]; other site 935296000221 DNA binding site [nucleotide binding] 935296000222 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cd00569 935296000223 DNA-binding interface [nucleotide binding]; DNA binding site 935296000224 integrase/recombinase; Provisional; Region: PRK15417 935296000225 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 935296000226 Int/Topo IB signature motif; other site 935296000227 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 935296000228 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 935296000229 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296000230 Coenzyme A binding pocket [chemical binding]; other site 935296000231 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 935296000232 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 935296000233 folate binding site [chemical binding]; other site 935296000234 NADP+ binding site [chemical binding]; other site 935296000235 aminoglycoside resistance protein; Provisional; Region: PRK13746 935296000236 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 935296000237 active site 935296000238 NTP binding site [chemical binding]; other site 935296000239 metal binding triad [ion binding]; metal-binding site 935296000240 antibiotic binding site [chemical binding]; other site 935296000241 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 935296000242 Small Multidrug Resistance protein; Region: Multi_Drug_Res; pfam00893 935296000243 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 935296000244 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 935296000245 substrate binding pocket [chemical binding]; other site 935296000246 dimer interface [polypeptide binding]; other site 935296000247 inhibitor binding site; inhibition site 935296000248 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 935296000249 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296000250 Coenzyme A binding pocket [chemical binding]; other site 935296000251 transposase/IS protein; Provisional; Region: PRK09183 935296000252 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 935296000253 Walker A motif; other site 935296000254 ATP binding site [chemical binding]; other site 935296000255 Walker B motif; other site 935296000256 arginine finger; other site 935296000257 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 935296000258 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 935296000259 Integrase core domain; Region: rve; pfam00665 935296000260 Bacterial TniB protein; Region: TniB; pfam05621 935296000261 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 935296000262 Integrase core domain; Region: rve; pfam00665 935296000263 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 935296000264 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 935296000265 putative mercury resistance protein; Provisional; Region: PRK13747 935296000266 transcriptional regulator MerD; Provisional; Region: PRK13749 935296000267 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 935296000268 DNA binding residues [nucleotide binding] 935296000269 putative mercuric reductase; Provisional; Region: PRK13748 935296000270 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 935296000271 metal-binding site [ion binding] 935296000272 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935296000273 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 935296000274 putative mercury transport protein MerC; Provisional; Region: PRK13755 935296000275 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 935296000276 metal-binding site [ion binding] 935296000277 putative mercuric transport protein; Provisional; Region: PRK13751 935296000278 putative transcriptional regulator MerR; Provisional; Region: PRK13752 935296000279 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 935296000280 DNA binding residues [nucleotide binding] 935296000281 dimer interface [polypeptide binding]; other site 935296000282 mercury binding site [ion binding]; other site 935296000283 Transposase; Region: DEDD_Tnp_IS110; pfam01548 935296000284 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 935296000285 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 935296000286 DNA replication terminus site-binding protein (Ter protein); Region: Ter; cl11502 935296000287 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 935296000288 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 935296000289 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 935296000290 Part of AAA domain; Region: AAA_19; pfam13245 935296000291 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; cl19402 935296000292 F plasmid transfer operon protein; Region: TraF; pfam13728 935296000293 Conjugative relaxosome accessory transposon protein; Region: TraH; pfam06122 935296000294 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 935296000295 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 935296000296 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 935296000297 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 935296000298 N-acetyl-D-glucosamine binding site [chemical binding]; other site 935296000299 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 935296000300 Domain in histone-like proteins of HNS family; Region: HNS; cl19571 935296000301 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 935296000302 Mg binding site [ion binding]; other site 935296000303 nucleotide binding site [chemical binding]; other site 935296000304 putative protofilament interface [polypeptide binding]; other site 935296000305 DNA replication initiation factor; Provisional; Region: PRK08084 935296000306 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 935296000307 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 935296000308 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 935296000309 catalytic residues [active] 935296000310 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 935296000311 Peptidase family M48; Region: Peptidase_M48; cl12018 935296000312 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 935296000313 binding surface 935296000314 TPR motif; other site 935296000315 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 935296000316 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 935296000317 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 935296000318 catalytic triad [active] 935296000319 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 935296000320 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 935296000321 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 935296000322 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 935296000323 dimer interface [polypeptide binding]; other site 935296000324 active site 935296000325 catalytic residue [active] 935296000326 lipoprotein; Provisional; Region: PRK11679 935296000327 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 935296000328 ATP binding site [chemical binding]; other site 935296000329 active site 935296000330 substrate binding site [chemical binding]; other site 935296000331 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 935296000332 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 935296000333 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 935296000334 Helicase; Region: Helicase_RecD; pfam05127 935296000335 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 935296000336 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296000337 Coenzyme A binding pocket [chemical binding]; other site 935296000338 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 935296000339 putative hydrolase; Provisional; Region: PRK11460 935296000340 Predicted esterase [General function prediction only]; Region: COG0400 935296000341 hypothetical protein; Provisional; Region: PRK13664 935296000342 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 935296000343 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 935296000344 metal binding site [ion binding]; metal-binding site 935296000345 dimer interface [polypeptide binding]; other site 935296000346 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 935296000347 putative catalytic residues [active] 935296000348 aminoglycoside/multidrug efflux system; Provisional; Region: PRK10555 935296000349 MMPL family; Region: MMPL; cl14618 935296000350 MMPL family; Region: MMPL; cl14618 935296000351 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 935296000352 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 935296000353 Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; Region: Fer4_20; pfam14691 935296000354 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 935296000355 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935296000356 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 935296000357 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 935296000358 dimer interface [polypeptide binding]; other site 935296000359 ADP-ribose binding site [chemical binding]; other site 935296000360 active site 935296000361 nudix motif; other site 935296000362 metal binding site [ion binding]; metal-binding site 935296000363 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 935296000364 transketolase; Reviewed; Region: PRK12753 935296000365 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 935296000366 TPP-binding site [chemical binding]; other site 935296000367 dimer interface [polypeptide binding]; other site 935296000368 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 935296000369 PYR/PP interface [polypeptide binding]; other site 935296000370 dimer interface [polypeptide binding]; other site 935296000371 TPP binding site [chemical binding]; other site 935296000372 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 935296000373 transaldolase-like protein; Provisional; Region: PTZ00411 935296000374 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 935296000375 active site 935296000376 dimer interface [polypeptide binding]; other site 935296000377 catalytic residue [active] 935296000378 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 935296000379 Malic enzyme, N-terminal domain; Region: malic; pfam00390 935296000380 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 935296000381 putative NAD(P) binding site [chemical binding]; other site 935296000382 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 935296000383 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 935296000384 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 935296000385 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 935296000386 active site 935296000387 metal binding site [ion binding]; metal-binding site 935296000388 putative acetyltransferase; Provisional; Region: PRK03624 935296000389 Uncharacterized conserved protein [Function unknown]; Region: COG3375 935296000390 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296000391 Coenzyme A binding pocket [chemical binding]; other site 935296000392 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 935296000393 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 935296000394 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 935296000395 thiosulfate transporter subunit; Provisional; Region: PRK10852 935296000396 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 935296000397 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 935296000398 dimer interface [polypeptide binding]; other site 935296000399 conserved gate region; other site 935296000400 putative PBP binding loops; other site 935296000401 ABC-ATPase subunit interface; other site 935296000402 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 935296000403 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 935296000404 dimer interface [polypeptide binding]; other site 935296000405 conserved gate region; other site 935296000406 putative PBP binding loops; other site 935296000407 ABC-ATPase subunit interface; other site 935296000408 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 935296000409 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 935296000410 Walker A/P-loop; other site 935296000411 ATP binding site [chemical binding]; other site 935296000412 Q-loop/lid; other site 935296000413 ABC transporter signature motif; other site 935296000414 Walker B; other site 935296000415 D-loop; other site 935296000416 H-loop/switch region; other site 935296000417 TOBE-like domain; Region: TOBE_3; pfam12857 935296000418 cysteine synthase; Region: PLN02565 935296000419 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 935296000420 dimer interface [polypeptide binding]; other site 935296000421 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296000422 catalytic residue [active] 935296000423 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 935296000424 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 935296000425 catalytic triad [active] 935296000426 transcriptional regulatory protein PtsJ; Provisional; Region: PRK15481 935296000427 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935296000428 DNA-binding site [nucleotide binding]; DNA binding site 935296000429 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 935296000430 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296000431 homodimer interface [polypeptide binding]; other site 935296000432 catalytic residue [active] 935296000433 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 935296000434 dimer interface [polypeptide binding]; other site 935296000435 pyridoxal binding site [chemical binding]; other site 935296000436 ATP binding site [chemical binding]; other site 935296000437 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 935296000438 HPr interaction site; other site 935296000439 glycerol kinase (GK) interaction site [polypeptide binding]; other site 935296000440 active site 935296000441 phosphorylation site [posttranslational modification] 935296000442 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 935296000443 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 935296000444 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 935296000445 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 935296000446 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 935296000447 dimerization domain swap beta strand [polypeptide binding]; other site 935296000448 regulatory protein interface [polypeptide binding]; other site 935296000449 active site 935296000450 regulatory phosphorylation site [posttranslational modification]; other site 935296000451 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 935296000452 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 935296000453 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 935296000454 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 935296000455 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 935296000456 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 935296000457 FtsZ protein binding site [polypeptide binding]; other site 935296000458 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 935296000459 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 935296000460 nucleotide binding pocket [chemical binding]; other site 935296000461 K-X-D-G motif; other site 935296000462 catalytic site [active] 935296000463 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 935296000464 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 935296000465 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 935296000466 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 935296000467 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 935296000468 Dimer interface [polypeptide binding]; other site 935296000469 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 935296000470 Sodium Bile acid symporter family; Region: SBF; cl19217 935296000471 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 935296000472 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296000473 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296000474 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 935296000475 putative dimerization interface [polypeptide binding]; other site 935296000476 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 935296000477 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 935296000478 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 935296000479 TrkA-N domain; Region: TrkA_N; pfam02254 935296000480 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 935296000481 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 935296000482 active site 935296000483 HIGH motif; other site 935296000484 KMSKS motif; other site 935296000485 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 935296000486 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 935296000487 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 935296000488 MASE1; Region: MASE1; cl17823 935296000489 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 935296000490 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 935296000491 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 935296000492 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 935296000493 Nucleoside recognition; Region: Gate; pfam07670 935296000494 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 935296000495 manganese transport protein MntH; Reviewed; Region: PRK00701 935296000496 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 935296000497 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 935296000498 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 935296000499 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 935296000500 active site 935296000501 catalytic tetrad [active] 935296000502 indolepyruvate decarboxylase, Erwinia family; Region: indolpyr_decarb; TIGR03393 935296000503 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 935296000504 dimer interface [polypeptide binding]; other site 935296000505 PYR/PP interface [polypeptide binding]; other site 935296000506 TPP binding site [chemical binding]; other site 935296000507 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 935296000508 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 935296000509 TPP-binding site [chemical binding]; other site 935296000510 dimer interface [polypeptide binding]; other site 935296000511 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 935296000512 Cl- selectivity filter; other site 935296000513 Cl- binding residues [ion binding]; other site 935296000514 pore gating glutamate residue; other site 935296000515 dimer interface [polypeptide binding]; other site 935296000516 glucokinase; Provisional; Region: glk; PRK00292 935296000517 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 935296000518 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 935296000519 active site 935296000520 phosphorylation site [posttranslational modification] 935296000521 intermolecular recognition site; other site 935296000522 dimerization interface [polypeptide binding]; other site 935296000523 LytTr DNA-binding domain; Region: LytTR; pfam04397 935296000524 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 935296000525 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 935296000526 GAF domain; Region: GAF; pfam01590 935296000527 Histidine kinase; Region: His_kinase; pfam06580 935296000528 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 935296000529 ATP binding site [chemical binding]; other site 935296000530 Mg2+ binding site [ion binding]; other site 935296000531 G-X-G motif; other site 935296000532 aminotransferase; Validated; Region: PRK08175 935296000533 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 935296000534 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296000535 homodimer interface [polypeptide binding]; other site 935296000536 catalytic residue [active] 935296000537 putative cyanate transporter; Provisional; Region: cynX; PRK09705 935296000538 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 935296000539 putative substrate translocation pore; other site 935296000540 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 935296000541 nucleoside/Zn binding site; other site 935296000542 dimer interface [polypeptide binding]; other site 935296000543 catalytic motif [active] 935296000544 MltA-interacting protein MipA; Region: MipA; cl01504 935296000545 cupin fold metalloprotein, WbuC family; Region: cupin_WbuC; TIGR04366 935296000546 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 935296000547 ABC transporter outer membrane lipoprotein; Provisional; Region: PRK15091 935296000548 long-chain fatty acid outer membrane transporter; Provisional; Region: PRK10716 935296000549 conserved hypothetical protein; Region: TIGR00743 935296000550 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 935296000551 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 935296000552 dimer interface [polypeptide binding]; other site 935296000553 active site 935296000554 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 935296000555 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 935296000556 substrate binding site [chemical binding]; other site 935296000557 oxyanion hole (OAH) forming residues; other site 935296000558 trimer interface [polypeptide binding]; other site 935296000559 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 935296000560 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 935296000561 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 935296000562 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 935296000563 catalytic core [active] 935296000564 hypothetical protein; Provisional; Region: PRK04946 935296000565 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 935296000566 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK11805 935296000567 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 935296000568 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 935296000569 Tetramer interface [polypeptide binding]; other site 935296000570 active site 935296000571 FMN-binding site [chemical binding]; other site 935296000572 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 935296000573 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 935296000574 hypothetical protein; Provisional; Region: PRK10621 935296000575 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3101 935296000576 YfcL protein; Region: YfcL; pfam08891 935296000577 Uncharacterized conserved protein [Function unknown]; Region: COG4121 935296000578 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 935296000579 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 935296000580 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 935296000581 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 935296000582 dimer interface [polypeptide binding]; other site 935296000583 active site 935296000584 putative transporter; Provisional; Region: PRK12382 935296000585 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 935296000586 putative substrate translocation pore; other site 935296000587 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 935296000588 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 935296000589 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 935296000590 ligand binding site [chemical binding]; other site 935296000591 NAD binding site [chemical binding]; other site 935296000592 catalytic site [active] 935296000593 homodimer interface [polypeptide binding]; other site 935296000594 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 935296000595 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 935296000596 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 935296000597 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 935296000598 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 935296000599 dimerization interface 3.5A [polypeptide binding]; other site 935296000600 active site 935296000601 hypothetical protein; Provisional; Region: PRK10847 935296000602 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 935296000603 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 935296000604 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 935296000605 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 935296000606 cell division protein DedD; Provisional; Region: PRK11633 935296000607 Modulator of retrovirus infection; Region: MRI; pfam15325 935296000608 Sporulation related domain; Region: SPOR; pfam05036 935296000609 colicin V production protein; Provisional; Region: PRK10845 935296000610 amidophosphoribosyltransferase; Provisional; Region: PRK09246 935296000611 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 935296000612 active site 935296000613 tetramer interface [polypeptide binding]; other site 935296000614 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935296000615 active site 935296000616 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 935296000617 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 935296000618 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 935296000619 substrate binding pocket [chemical binding]; other site 935296000620 membrane-bound complex binding site; other site 935296000621 hinge residues; other site 935296000622 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 935296000623 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 935296000624 substrate binding pocket [chemical binding]; other site 935296000625 membrane-bound complex binding site; other site 935296000626 hinge residues; other site 935296000627 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 935296000628 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 935296000629 dimer interface [polypeptide binding]; other site 935296000630 conserved gate region; other site 935296000631 putative PBP binding loops; other site 935296000632 ABC-ATPase subunit interface; other site 935296000633 ABC-type arginine/histidine transport system, permease component [Amino acid transport and metabolism]; Region: ArtM; COG4160 935296000634 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 935296000635 dimer interface [polypeptide binding]; other site 935296000636 conserved gate region; other site 935296000637 putative PBP binding loops; other site 935296000638 ABC-ATPase subunit interface; other site 935296000639 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 935296000640 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 935296000641 Walker A/P-loop; other site 935296000642 ATP binding site [chemical binding]; other site 935296000643 Q-loop/lid; other site 935296000644 ABC transporter signature motif; other site 935296000645 Walker B; other site 935296000646 D-loop; other site 935296000647 H-loop/switch region; other site 935296000648 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 935296000649 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 935296000650 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 935296000651 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 935296000652 putative NAD(P) binding site [chemical binding]; other site 935296000653 putative active site [active] 935296000654 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 935296000655 homooctamer interface [polypeptide binding]; other site 935296000656 active site 935296000657 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 935296000658 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 935296000659 C-terminal domain interface [polypeptide binding]; other site 935296000660 GSH binding site (G-site) [chemical binding]; other site 935296000661 dimer interface [polypeptide binding]; other site 935296000662 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 935296000663 N-terminal domain interface [polypeptide binding]; other site 935296000664 putative dimer interface [polypeptide binding]; other site 935296000665 active site 935296000666 glutathione S-transferase; Provisional; Region: PRK15113 935296000667 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 935296000668 C-terminal domain interface [polypeptide binding]; other site 935296000669 GSH binding site (G-site) [chemical binding]; other site 935296000670 dimer interface [polypeptide binding]; other site 935296000671 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 935296000672 N-terminal domain interface [polypeptide binding]; other site 935296000673 putative dimer interface [polypeptide binding]; other site 935296000674 putative substrate binding pocket (H-site) [chemical binding]; other site 935296000675 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 935296000676 active site 935296000677 metal binding site [ion binding]; metal-binding site 935296000678 homotetramer interface [polypeptide binding]; other site 935296000679 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 935296000680 nudix motif; other site 935296000681 phosphate acetyltransferase; Reviewed; Region: PRK05632 935296000682 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 935296000683 DRTGG domain; Region: DRTGG; pfam07085 935296000684 phosphate acetyltransferase; Region: pta; TIGR00651 935296000685 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 935296000686 hypothetical protein; Provisional; Region: PRK01816 935296000687 hypothetical protein; Validated; Region: PRK05445 935296000688 putative phosphatase; Provisional; Region: PRK11587 935296000689 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 935296000690 active site 935296000691 motif I; other site 935296000692 motif II; other site 935296000693 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 935296000694 transmembrane helices; other site 935296000695 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 935296000696 TrkA-C domain; Region: TrkA_C; pfam02080 935296000697 TrkA-C domain; Region: TrkA_C; pfam02080 935296000698 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 935296000699 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 935296000700 Zn2+ binding site [ion binding]; other site 935296000701 Mg2+ binding site [ion binding]; other site 935296000702 aminotransferase AlaT; Validated; Region: PRK09265 935296000703 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 935296000704 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296000705 homodimer interface [polypeptide binding]; other site 935296000706 catalytic residue [active] 935296000707 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 935296000708 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296000709 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 935296000710 putative dimerization interface [polypeptide binding]; other site 935296000711 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 935296000712 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 935296000713 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 935296000714 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 935296000715 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 935296000716 NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]; Region: NuoE; COG1905 935296000717 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 935296000718 putative dimer interface [polypeptide binding]; other site 935296000719 [2Fe-2S] cluster binding site [ion binding]; other site 935296000720 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 935296000721 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 935296000722 SLBB domain; Region: SLBB; pfam10531 935296000723 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 935296000724 NADH dehydrogenase subunit G; Validated; Region: PRK08166 935296000725 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 935296000726 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 935296000727 [4Fe-4S] binding site [ion binding]; other site 935296000728 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 935296000729 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 935296000730 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 935296000731 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; cl19102 935296000732 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 935296000733 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 935296000734 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 935296000735 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 935296000736 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 935296000737 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 935296000738 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 935296000739 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 935296000740 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 935296000741 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 935296000742 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 935296000743 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 935296000744 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296000745 Coenzyme A binding pocket [chemical binding]; other site 935296000746 menaquinone-specific isochorismate synthase; Provisional; Region: PRK15012 935296000747 chorismate binding enzyme; Region: Chorismate_bind; cl10555 935296000748 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 935296000749 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 935296000750 dimer interface [polypeptide binding]; other site 935296000751 tetramer interface [polypeptide binding]; other site 935296000752 PYR/PP interface [polypeptide binding]; other site 935296000753 TPP binding site [chemical binding]; other site 935296000754 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 935296000755 TPP-binding site; other site 935296000756 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 935296000757 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 935296000758 dihydroxynaphthoic acid synthetase; Validated; Region: PRK07396 935296000759 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 935296000760 substrate binding site [chemical binding]; other site 935296000761 oxyanion hole (OAH) forming residues; other site 935296000762 trimer interface [polypeptide binding]; other site 935296000763 O-succinylbenzoate synthase; Provisional; Region: PRK05105 935296000764 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 935296000765 active site 935296000766 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 935296000767 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 935296000768 acyl-activating enzyme (AAE) consensus motif; other site 935296000769 putative AMP binding site [chemical binding]; other site 935296000770 putative active site [active] 935296000771 putative CoA binding site [chemical binding]; other site 935296000772 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 935296000773 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 935296000774 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 935296000775 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 935296000776 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 935296000777 active site 935296000778 phosphorylation site [posttranslational modification] 935296000779 intermolecular recognition site; other site 935296000780 dimerization interface [polypeptide binding]; other site 935296000781 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 935296000782 DNA binding site [nucleotide binding] 935296000783 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 935296000784 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 935296000785 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 935296000786 dimer interface [polypeptide binding]; other site 935296000787 phosphorylation site [posttranslational modification] 935296000788 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 935296000789 ATP binding site [chemical binding]; other site 935296000790 Mg2+ binding site [ion binding]; other site 935296000791 G-X-G motif; other site 935296000792 nucleoside triphosphatase NudI; Provisional; Region: PRK15472 935296000793 YfaZ precursor; Region: YfaZ; pfam07437 935296000794 hypothetical protein; Provisional; Region: PRK03673 935296000795 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 935296000796 putative MPT binding site; other site 935296000797 Competence-damaged protein; Region: CinA; cl00666 935296000798 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 935296000799 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 935296000800 Cysteine-rich domain; Region: CCG; pfam02754 935296000801 Cysteine-rich domain; Region: CCG; pfam02754 935296000802 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 935296000803 FAD binding domain; Region: FAD_binding_2; pfam00890 935296000804 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 935296000805 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 935296000806 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 935296000807 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 935296000808 putative substrate translocation pore; other site 935296000809 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 935296000810 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 935296000811 active site 935296000812 catalytic site [active] 935296000813 metal binding site [ion binding]; metal-binding site 935296000814 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 935296000815 catalytic loop [active] 935296000816 iron binding site [ion binding]; other site 935296000817 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 935296000818 dimer interface [polypeptide binding]; other site 935296000819 putative radical transfer pathway; other site 935296000820 diiron center [ion binding]; other site 935296000821 tyrosyl radical; other site 935296000822 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 935296000823 ATP cone domain; Region: ATP-cone; pfam03477 935296000824 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 935296000825 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 935296000826 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 935296000827 S-adenosylmethionine binding site [chemical binding]; other site 935296000828 DNA gyrase subunit A; Validated; Region: PRK05560 935296000829 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 935296000830 CAP-like domain; other site 935296000831 active site 935296000832 primary dimer interface [polypeptide binding]; other site 935296000833 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 935296000834 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 935296000835 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 935296000836 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 935296000837 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 935296000838 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 935296000839 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 935296000840 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 935296000841 dimer interface [polypeptide binding]; other site 935296000842 phosphorylation site [posttranslational modification] 935296000843 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 935296000844 ATP binding site [chemical binding]; other site 935296000845 Mg2+ binding site [ion binding]; other site 935296000846 G-X-G motif; other site 935296000847 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 935296000848 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 935296000849 active site 935296000850 phosphorylation site [posttranslational modification] 935296000851 intermolecular recognition site; other site 935296000852 dimerization interface [polypeptide binding]; other site 935296000853 transcriptional regulator RcsB; Provisional; Region: PRK10840 935296000854 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 935296000855 active site 935296000856 phosphorylation site [posttranslational modification] 935296000857 intermolecular recognition site; other site 935296000858 dimerization interface [polypeptide binding]; other site 935296000859 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 935296000860 DNA binding residues [nucleotide binding] 935296000861 dimerization interface [polypeptide binding]; other site 935296000862 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 935296000863 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 935296000864 ATP binding site [chemical binding]; other site 935296000865 Mg2+ binding site [ion binding]; other site 935296000866 G-X-G motif; other site 935296000867 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 935296000868 putative binding surface; other site 935296000869 active site 935296000870 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 935296000871 outer membrane porin protein C; Provisional; Region: PRK10554 935296000872 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 935296000873 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 935296000874 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 935296000875 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296000876 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 935296000877 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 935296000878 DNA binding site [nucleotide binding] 935296000879 active site 935296000880 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 935296000881 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 935296000882 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 935296000883 Walker A/P-loop; other site 935296000884 ATP binding site [chemical binding]; other site 935296000885 Q-loop/lid; other site 935296000886 ABC transporter signature motif; other site 935296000887 Walker B; other site 935296000888 D-loop; other site 935296000889 H-loop/switch region; other site 935296000890 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 935296000891 MgtE intracellular N domain; Region: MgtE_N; smart00924 935296000892 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 935296000893 Divalent cation transporter; Region: MgtE; cl00786 935296000894 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 935296000895 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 935296000896 Sulfate transporter family; Region: Sulfate_transp; cl19250 935296000897 malate:quinone oxidoreductase; Validated; Region: PRK05257 935296000898 Predicted dehydrogenase [General function prediction only]; Region: COG0579 935296000899 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cl00178 935296000900 primary substrate binding site; other site 935296000901 inhibition loop; other site 935296000902 secondary substrate binding site; other site 935296000903 dimerization interface [polypeptide binding]; other site 935296000904 Phage Tail Collar Domain; Region: Collar; pfam07484 935296000905 Phage Tail Collar Domain; Region: Collar; pfam07484 935296000906 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 935296000907 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 935296000908 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 935296000909 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 935296000910 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 935296000911 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 935296000912 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 935296000913 Phage Tail Collar Domain; Region: Collar; pfam07484 935296000914 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 935296000915 Baseplate J-like protein; Region: Baseplate_J; cl01294 935296000916 Phage baseplate assembly protein W [General function prediction only]; Region: COG3628 935296000917 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 935296000918 Phage protein D [General function prediction only]; Region: COG3500 935296000919 Phage Tail Protein X; Region: Phage_tail_X; cl02088 935296000920 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 935296000921 Phage-related tail protein [Function unknown]; Region: COG5283 935296000922 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 935296000923 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 935296000924 Phage tail tube protein FII; Region: Phage_tube; cl01390 935296000925 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 935296000926 Gp37 protein; Region: Gp37; pfam09646 935296000927 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 935296000928 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 935296000929 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 935296000930 Protein of unknown function (DUF935); Region: DUF935; pfam06074 935296000931 Phage Terminase; Region: Terminase_1; cl19862 935296000932 Terminase-like family; Region: Terminase_6; pfam03237 935296000933 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 935296000934 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 935296000935 phage lambda Rz-like lysis protein; Region: PHA00276 935296000936 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 935296000937 N-acetyl-D-glucosamine binding site [chemical binding]; other site 935296000938 catalytic residue [active] 935296000939 Protein of unknown function (DUF4063); Region: DUF4063; pfam13272 935296000940 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 935296000941 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 935296000942 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 935296000943 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 935296000944 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 935296000945 Integrase core domain; Region: rve; pfam00665 935296000946 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 935296000947 AAA domain; Region: AAA_22; pfam13401 935296000948 Walker A motif; other site 935296000949 ATP binding site [chemical binding]; other site 935296000950 Walker B motif; other site 935296000951 arginine finger; other site 935296000952 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; cl01825 935296000953 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u2; cd11539 935296000954 metal binding site [ion binding]; metal-binding site 935296000955 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 935296000956 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 935296000957 Mor transcription activator family; Region: Mor; pfam08765 935296000958 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cl00178 935296000959 primary substrate binding site; other site 935296000960 inhibition loop; other site 935296000961 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 935296000962 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 935296000963 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 935296000964 Sulfatase; Region: Sulfatase; cl19157 935296000965 hypothetical protein; Provisional; Region: PRK13689 935296000966 nucleoid-associated protein NdpA; Validated; Region: PRK00378 935296000967 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 935296000968 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 935296000969 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 935296000970 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 935296000971 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 935296000972 dimer interface [polypeptide binding]; other site 935296000973 ADP-ribose binding site [chemical binding]; other site 935296000974 active site 935296000975 nudix motif; other site 935296000976 metal binding site [ion binding]; metal-binding site 935296000977 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 935296000978 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296000979 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296000980 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 935296000981 dimerization interface [polypeptide binding]; other site 935296000982 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 935296000983 5S rRNA interface [nucleotide binding]; other site 935296000984 CTC domain interface [polypeptide binding]; other site 935296000985 L16 interface [polypeptide binding]; other site 935296000986 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 935296000987 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 935296000988 ATP binding site [chemical binding]; other site 935296000989 putative Mg++ binding site [ion binding]; other site 935296000990 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 935296000991 nucleotide binding region [chemical binding]; other site 935296000992 ATP-binding site [chemical binding]; other site 935296000993 Ribosomal L40e family; Region: Ribosomal_L40e; cl00671 935296000994 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 935296000995 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 935296000996 RNA binding surface [nucleotide binding]; other site 935296000997 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 935296000998 active site 935296000999 uracil binding [chemical binding]; other site 935296001000 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 935296001001 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 935296001002 putative substrate translocation pore; other site 935296001003 hypothetical protein; Provisional; Region: PRK11835 935296001004 microcin C ABC transporter ATP-binding protein YejF; Provisional; Region: PRK15134 935296001005 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935296001006 Walker A/P-loop; other site 935296001007 ATP binding site [chemical binding]; other site 935296001008 Q-loop/lid; other site 935296001009 ABC transporter signature motif; other site 935296001010 Walker B; other site 935296001011 D-loop; other site 935296001012 H-loop/switch region; other site 935296001013 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 935296001014 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935296001015 Walker A/P-loop; other site 935296001016 ATP binding site [chemical binding]; other site 935296001017 Q-loop/lid; other site 935296001018 ABC transporter signature motif; other site 935296001019 Walker B; other site 935296001020 D-loop; other site 935296001021 H-loop/switch region; other site 935296001022 microcin C ABC transporter permease; Provisional; Region: PRK15021 935296001023 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 935296001024 dimer interface [polypeptide binding]; other site 935296001025 conserved gate region; other site 935296001026 putative PBP binding loops; other site 935296001027 ABC-ATPase subunit interface; other site 935296001028 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 935296001029 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 935296001030 dimer interface [polypeptide binding]; other site 935296001031 conserved gate region; other site 935296001032 putative PBP binding loops; other site 935296001033 ABC-ATPase subunit interface; other site 935296001034 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 935296001035 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 935296001036 phage resistance protein; Provisional; Region: PRK10551 935296001037 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 935296001038 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 935296001039 NlpC/P60 family; Region: NLPC_P60; pfam00877 935296001040 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 935296001041 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 935296001042 active site 935296001043 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 935296001044 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 935296001045 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 935296001046 D-mannonate oxidoreductase; Provisional; Region: PRK15037 935296001047 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 935296001048 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 935296001049 mannonate dehydratase; Provisional; Region: PRK03906 935296001050 mannonate dehydratase; Region: uxuA; TIGR00695 935296001051 elongation factor P; Provisional; Region: PRK04542 935296001052 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 935296001053 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 935296001054 RNA binding site [nucleotide binding]; other site 935296001055 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 935296001056 RNA binding site [nucleotide binding]; other site 935296001057 Putative zinc- or iron-chelating domain; Region: CxxCxxCC; pfam03692 935296001058 sugar efflux transporter B; Provisional; Region: PRK15011 935296001059 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 935296001060 putative substrate translocation pore; other site 935296001061 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 935296001062 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 935296001063 active site 935296001064 phosphorylation site [posttranslational modification] 935296001065 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 935296001066 dimerization domain swap beta strand [polypeptide binding]; other site 935296001067 regulatory protein interface [polypeptide binding]; other site 935296001068 active site 935296001069 regulatory phosphorylation site [posttranslational modification]; other site 935296001070 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 935296001071 putative substrate binding site [chemical binding]; other site 935296001072 putative ATP binding site [chemical binding]; other site 935296001073 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 935296001074 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 935296001075 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 935296001076 active site 935296001077 P-loop; other site 935296001078 phosphorylation site [posttranslational modification] 935296001079 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 935296001080 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 935296001081 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 935296001082 AP (apurinic/apyrimidinic) site pocket; other site 935296001083 DNA interaction; other site 935296001084 Metal-binding active site; metal-binding site 935296001085 conserved hypothetical integral membrane protein; Region: TIGR00698 935296001086 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 935296001087 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296001088 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 935296001089 putative dimerization interface [polypeptide binding]; other site 935296001090 lysine transporter; Provisional; Region: PRK10836 935296001091 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 935296001092 catecholate siderophore receptor CirA; Provisional; Region: PRK10064 935296001093 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 935296001094 N-terminal plug; other site 935296001095 ligand-binding site [chemical binding]; other site 935296001096 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 935296001097 catalytic residues [active] 935296001098 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 935296001099 Citrate transporter; Region: CitMHS; pfam03600 935296001100 transmembrane helices; other site 935296001101 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 935296001102 dimerization interface [polypeptide binding]; other site 935296001103 putative DNA binding site [nucleotide binding]; other site 935296001104 putative Zn2+ binding site [ion binding]; other site 935296001105 Predicted esterase [General function prediction only]; Region: COG0627 935296001106 S-formylglutathione hydrolase; Region: PLN02442 935296001107 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 935296001108 active site 935296001109 Predicted membrane protein [Function unknown]; Region: COG2311 935296001110 hypothetical protein; Provisional; Region: PRK10835 935296001111 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 935296001112 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 935296001113 DNA binding site [nucleotide binding] 935296001114 domain linker motif; other site 935296001115 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 935296001116 dimerization interface (closed form) [polypeptide binding]; other site 935296001117 ligand binding site [chemical binding]; other site 935296001118 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 935296001119 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 935296001120 ligand binding site [chemical binding]; other site 935296001121 calcium binding site [ion binding]; other site 935296001122 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 935296001123 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 935296001124 Walker A/P-loop; other site 935296001125 ATP binding site [chemical binding]; other site 935296001126 Q-loop/lid; other site 935296001127 ABC transporter signature motif; other site 935296001128 Walker B; other site 935296001129 D-loop; other site 935296001130 H-loop/switch region; other site 935296001131 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 935296001132 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 935296001133 TM-ABC transporter signature motif; other site 935296001134 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 935296001135 putative active site [active] 935296001136 cytidine deaminase; Provisional; Region: PRK09027 935296001137 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 935296001138 active site 935296001139 catalytic motif [active] 935296001140 Zn binding site [ion binding]; other site 935296001141 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 935296001142 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 935296001143 active site 935296001144 catalytic motif [active] 935296001145 Zn binding site [ion binding]; other site 935296001146 hypothetical protein; Provisional; Region: PRK10711 935296001147 hypothetical protein; Provisional; Region: PRK01821 935296001148 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296001149 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296001150 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 935296001151 dimerization interface [polypeptide binding]; other site 935296001152 benzoate transport; Region: 2A0115; TIGR00895 935296001153 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 935296001154 putative substrate translocation pore; other site 935296001155 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 935296001156 Cupin domain; Region: Cupin_2; pfam07883 935296001157 Cupin domain; Region: Cupin_2; cl17218 935296001158 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 935296001159 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 935296001160 GST_N family, Class Zeta 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_Zeta; cd03042 935296001161 maleylacetoacetate isomerase; Region: maiA; TIGR01262 935296001162 C-terminal domain interface [polypeptide binding]; other site 935296001163 GSH binding site (G-site) [chemical binding]; other site 935296001164 putative dimer interface [polypeptide binding]; other site 935296001165 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 935296001166 dimer interface [polypeptide binding]; other site 935296001167 N-terminal domain interface [polypeptide binding]; other site 935296001168 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 935296001169 salicylate hydroxylase; Provisional; Region: PRK08163 935296001170 Squalene epoxidase; Region: SE; cl17314 935296001171 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 935296001172 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 935296001173 FMN binding site [chemical binding]; other site 935296001174 active site 935296001175 catalytic residues [active] 935296001176 substrate binding site [chemical binding]; other site 935296001177 transcriptional antiterminator BglG; Provisional; Region: PRK09772 935296001178 CAT RNA binding domain; Region: CAT_RBD; smart01061 935296001179 PRD domain; Region: PRD; pfam00874 935296001180 PRD domain; Region: PRD; pfam00874 935296001181 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional; Region: PRK09824 935296001182 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 935296001183 active site turn [active] 935296001184 phosphorylation site [posttranslational modification] 935296001185 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 935296001186 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 935296001187 HPr interaction site; other site 935296001188 glycerol kinase (GK) interaction site [polypeptide binding]; other site 935296001189 active site 935296001190 phosphorylation site [posttranslational modification] 935296001191 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 935296001192 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; cl01046 935296001193 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 935296001194 S-adenosylmethionine binding site [chemical binding]; other site 935296001195 multidrug resistance outer membrane protein MdtQ; Provisional; Region: PRK11459 935296001196 Outer membrane efflux protein; Region: OEP; pfam02321 935296001197 Outer membrane efflux protein; Region: OEP; pfam02321 935296001198 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 935296001199 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 935296001200 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 935296001201 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 935296001202 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 935296001203 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296001204 Coenzyme A binding pocket [chemical binding]; other site 935296001205 D-lactate dehydrogenase; Provisional; Region: PRK11183 935296001206 FAD binding domain; Region: FAD_binding_4; cl19922 935296001207 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 935296001208 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 935296001209 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 935296001210 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 935296001211 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 935296001212 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 935296001213 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 935296001214 dimer interface [polypeptide binding]; other site 935296001215 conserved gate region; other site 935296001216 putative PBP binding loops; other site 935296001217 ABC-ATPase subunit interface; other site 935296001218 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 935296001219 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296001220 Walker A/P-loop; other site 935296001221 ATP binding site [chemical binding]; other site 935296001222 Q-loop/lid; other site 935296001223 ABC transporter signature motif; other site 935296001224 Walker B; other site 935296001225 D-loop; other site 935296001226 H-loop/switch region; other site 935296001227 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; cd02205 935296001228 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 935296001229 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 935296001230 dimer interface [polypeptide binding]; other site 935296001231 conserved gate region; other site 935296001232 putative PBP binding loops; other site 935296001233 ABC-ATPase subunit interface; other site 935296001234 hypothetical protein; Provisional; Region: PRK13681 935296001235 transcriptional regulator MirA; Provisional; Region: PRK15043 935296001236 Helix-Turn-Helix DNA binding domain of MlrA-like transcription regulators; Region: HTH_MlrA-like; cd04763 935296001237 DNA binding residues [nucleotide binding] 935296001238 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 935296001239 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 935296001240 GAF domain; Region: GAF; pfam01590 935296001241 Histidine kinase; Region: His_kinase; pfam06580 935296001242 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 935296001243 ATP binding site [chemical binding]; other site 935296001244 Mg2+ binding site [ion binding]; other site 935296001245 G-X-G motif; other site 935296001246 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 935296001247 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 935296001248 active site 935296001249 phosphorylation site [posttranslational modification] 935296001250 intermolecular recognition site; other site 935296001251 dimerization interface [polypeptide binding]; other site 935296001252 LytTr DNA-binding domain; Region: LytTR; pfam04397 935296001253 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 935296001254 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 935296001255 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 935296001256 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4808 935296001257 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 935296001258 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 935296001259 active site 935296001260 KMSKS motif; other site 935296001261 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 935296001262 tRNA binding surface [nucleotide binding]; other site 935296001263 anticodon binding site; other site 935296001264 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 935296001265 dimer interface [polypeptide binding]; other site 935296001266 putative tRNA-binding site [nucleotide binding]; other site 935296001267 antiporter inner membrane protein; Provisional; Region: PRK11670 935296001268 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 935296001269 Walker A motif; other site 935296001270 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 935296001271 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296001272 Coenzyme A binding pocket [chemical binding]; other site 935296001273 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 935296001274 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296001275 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296001276 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 935296001277 putative effector binding pocket; other site 935296001278 dimerization interface [polypeptide binding]; other site 935296001279 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 935296001280 Sulfate transporter family; Region: Sulfate_transp; cl19250 935296001281 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 935296001282 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 935296001283 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 935296001284 active site 935296001285 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296001286 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296001287 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 935296001288 dimerization interface [polypeptide binding]; other site 935296001289 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 935296001290 Ligand Binding Site [chemical binding]; other site 935296001291 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 935296001292 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 935296001293 Alkyl sulfatase dimerization; Region: Alkyl_sulf_dimr; pfam14863 935296001294 Alkyl sulfatase C-terminal; Region: Alkyl_sulf_C; pfam14864 935296001295 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 935296001296 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 935296001297 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 935296001298 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 935296001299 Alkyl sulfatase dimerization; Region: Alkyl_sulf_dimr; pfam14863 935296001300 Alkyl sulfatase C-terminal; Region: Alkyl_sulf_C; pfam14864 935296001301 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 935296001302 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 935296001303 substrate binding site [chemical binding]; other site 935296001304 multimerization interface [polypeptide binding]; other site 935296001305 ATP binding site [chemical binding]; other site 935296001306 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 935296001307 dimer interface [polypeptide binding]; other site 935296001308 substrate binding site [chemical binding]; other site 935296001309 ATP binding site [chemical binding]; other site 935296001310 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 935296001311 putative active site; other site 935296001312 catalytic residue [active] 935296001313 polyol permease family; Region: 2A0118; TIGR00897 935296001314 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 935296001315 putative substrate translocation pore; other site 935296001316 FGGY-family pentulose kinase; Region: 5C_CHO_kinase; TIGR01315 935296001317 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 935296001318 N- and C-terminal domain interface [polypeptide binding]; other site 935296001319 active site 935296001320 MgATP binding site [chemical binding]; other site 935296001321 catalytic site [active] 935296001322 metal binding site [ion binding]; metal-binding site 935296001323 carbohydrate binding site [chemical binding]; other site 935296001324 putative homodimer interface [polypeptide binding]; other site 935296001325 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 935296001326 classical (c) SDRs; Region: SDR_c; cd05233 935296001327 NAD(P) binding site [chemical binding]; other site 935296001328 active site 935296001329 Transcriptional regulators [Transcription]; Region: PurR; COG1609 935296001330 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 935296001331 DNA binding site [nucleotide binding] 935296001332 domain linker motif; other site 935296001333 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 935296001334 dimerization interface [polypeptide binding]; other site 935296001335 ligand binding site [chemical binding]; other site 935296001336 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 935296001337 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; cl17320 935296001338 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 935296001339 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 935296001340 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 935296001341 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 935296001342 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 935296001343 N- and C-terminal domain interface [polypeptide binding]; other site 935296001344 active site 935296001345 MgATP binding site [chemical binding]; other site 935296001346 catalytic site [active] 935296001347 metal binding site [ion binding]; metal-binding site 935296001348 xylulose binding site [chemical binding]; other site 935296001349 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 935296001350 polyol permease family; Region: 2A0118; TIGR00897 935296001351 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 935296001352 putative substrate translocation pore; other site 935296001353 lipid kinase; Reviewed; Region: PRK13054 935296001354 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 935296001355 putative protease; Provisional; Region: PRK15452 935296001356 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 935296001357 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 935296001358 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 935296001359 active site 935296001360 phosphorylation site [posttranslational modification] 935296001361 intermolecular recognition site; other site 935296001362 dimerization interface [polypeptide binding]; other site 935296001363 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 935296001364 DNA binding site [nucleotide binding] 935296001365 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 935296001366 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 935296001367 dimerization interface [polypeptide binding]; other site 935296001368 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 935296001369 dimer interface [polypeptide binding]; other site 935296001370 phosphorylation site [posttranslational modification] 935296001371 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 935296001372 ATP binding site [chemical binding]; other site 935296001373 Mg2+ binding site [ion binding]; other site 935296001374 G-X-G motif; other site 935296001375 putative transporter; Provisional; Region: PRK10504 935296001376 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 935296001377 putative substrate translocation pore; other site 935296001378 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 935296001379 MMPL family; Region: MMPL; cl14618 935296001380 MMPL family; Region: MMPL; cl14618 935296001381 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 935296001382 MMPL family; Region: MMPL; cl14618 935296001383 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 935296001384 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 935296001385 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 935296001386 HlyD family secretion protein; Region: HlyD_3; pfam13437 935296001387 putative chaperone; Provisional; Region: PRK11678 935296001388 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 935296001389 nucleotide binding site [chemical binding]; other site 935296001390 putative NEF/HSP70 interaction site [polypeptide binding]; other site 935296001391 SBD interface [polypeptide binding]; other site 935296001392 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 935296001393 AlkA N-terminal domain; Region: AlkA_N; pfam06029 935296001394 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 935296001395 minor groove reading motif; other site 935296001396 helix-hairpin-helix signature motif; other site 935296001397 substrate binding pocket [chemical binding]; other site 935296001398 active site 935296001399 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 935296001400 ATP-binding site [chemical binding]; other site 935296001401 Sugar specificity; other site 935296001402 Pyrimidine base specificity; other site 935296001403 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 935296001404 trimer interface [polypeptide binding]; other site 935296001405 active site 935296001406 putative assembly protein; Provisional; Region: PRK10833 935296001407 Gyrovirus capsid protein (VP1); Region: Gyro_capsid; pfam04162 935296001408 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 935296001409 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 935296001410 FOG: CBS domain [General function prediction only]; Region: COG0517 935296001411 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 935296001412 Transporter associated domain; Region: CorC_HlyC; smart01091 935296001413 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 935296001414 active site 935296001415 tetramer interface; other site 935296001416 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; cl00474 935296001417 active site 935296001418 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 935296001419 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 935296001420 polysaccharide export protein Wza; Provisional; Region: PRK15078 935296001421 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 935296001422 SLBB domain; Region: SLBB; pfam10531 935296001423 Low molecular weight phosphatase family; Region: LMWPc; cl00105 935296001424 tyrosine kinase; Provisional; Region: PRK11519 935296001425 Chain length determinant protein; Region: Wzz; pfam02706 935296001426 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 935296001427 AAA domain; Region: AAA_31; pfam13614 935296001428 undecaprenyl-phosphate galactose phosphotransferase; Provisional; Region: PRK15204 935296001429 CoA binding domain; Region: CoA_binding; cl17356 935296001430 Bacterial sugar transferase; Region: Bac_transf; pfam02397 935296001431 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 935296001432 active site 935296001433 metal binding site [ion binding]; metal-binding site 935296001434 substrate binding site [chemical binding]; other site 935296001435 UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; Region: UDPG_MGDP_dh_N; pfam03721 935296001436 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 935296001437 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 935296001438 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 935296001439 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 935296001440 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 935296001441 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 935296001442 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 935296001443 putative ADP-binding pocket [chemical binding]; other site 935296001444 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 935296001445 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 935296001446 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 935296001447 putative NAD(P) binding site [chemical binding]; other site 935296001448 active site 935296001449 putative substrate binding site [chemical binding]; other site 935296001450 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 935296001451 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 935296001452 Substrate binding site; other site 935296001453 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 935296001454 phosphomannomutase CpsG; Provisional; Region: PRK15414 935296001455 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 935296001456 active site 935296001457 substrate binding site [chemical binding]; other site 935296001458 metal binding site [ion binding]; metal-binding site 935296001459 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 935296001460 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 935296001461 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 935296001462 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 935296001463 Walker A/P-loop; other site 935296001464 ATP binding site [chemical binding]; other site 935296001465 Q-loop/lid; other site 935296001466 ABC transporter signature motif; other site 935296001467 Walker B; other site 935296001468 D-loop; other site 935296001469 H-loop/switch region; other site 935296001470 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 935296001471 putative carbohydrate binding site [chemical binding]; other site 935296001472 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 935296001473 S-adenosylmethionine binding site [chemical binding]; other site 935296001474 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 935296001475 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 935296001476 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 935296001477 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 935296001478 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 935296001479 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 935296001480 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 935296001481 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 935296001482 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 935296001483 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 935296001484 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 935296001485 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 935296001486 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 935296001487 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 935296001488 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 935296001489 metal binding site [ion binding]; metal-binding site 935296001490 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 935296001491 substrate binding site [chemical binding]; other site 935296001492 glutamase interaction surface [polypeptide binding]; other site 935296001493 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 935296001494 catalytic residues [active] 935296001495 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13142 935296001496 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 935296001497 putative active site [active] 935296001498 oxyanion strand; other site 935296001499 catalytic triad [active] 935296001500 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 935296001501 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 935296001502 active site 935296001503 motif I; other site 935296001504 motif II; other site 935296001505 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 935296001506 putative active site pocket [active] 935296001507 4-fold oligomerization interface [polypeptide binding]; other site 935296001508 metal binding residues [ion binding]; metal-binding site 935296001509 3-fold/trimer interface [polypeptide binding]; other site 935296001510 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 935296001511 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 935296001512 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296001513 homodimer interface [polypeptide binding]; other site 935296001514 catalytic residue [active] 935296001515 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 935296001516 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 935296001517 NAD binding site [chemical binding]; other site 935296001518 dimerization interface [polypeptide binding]; other site 935296001519 product binding site; other site 935296001520 substrate binding site [chemical binding]; other site 935296001521 zinc binding site [ion binding]; other site 935296001522 catalytic residues [active] 935296001523 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 935296001524 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 935296001525 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 935296001526 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 935296001527 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 935296001528 putative NAD(P) binding site [chemical binding]; other site 935296001529 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296001530 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 935296001531 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 935296001532 dimerization interface [polypeptide binding]; other site 935296001533 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 935296001534 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 935296001535 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 935296001536 dimerization interface [polypeptide binding]; other site 935296001537 putative DNA binding site [nucleotide binding]; other site 935296001538 putative Zn2+ binding site [ion binding]; other site 935296001539 elongation factor G; Reviewed; Region: PRK00007 935296001540 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 935296001541 G1 box; other site 935296001542 putative GEF interaction site [polypeptide binding]; other site 935296001543 GTP/Mg2+ binding site [chemical binding]; other site 935296001544 Switch I region; other site 935296001545 G2 box; other site 935296001546 G3 box; other site 935296001547 Switch II region; other site 935296001548 G4 box; other site 935296001549 G5 box; other site 935296001550 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 935296001551 Elongation Factor G, domain II; Region: EFG_II; pfam14492 935296001552 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 935296001553 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 935296001554 exonuclease I; Provisional; Region: sbcB; PRK11779 935296001555 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 935296001556 active site 935296001557 catalytic site [active] 935296001558 substrate binding site [chemical binding]; other site 935296001559 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 935296001560 D-alanyl-D-alanine carboxypeptidase; Provisional; Region: dacD; PRK11397 935296001561 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 935296001562 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 935296001563 DNA gyrase inhibitor; Provisional; Region: PRK10016 935296001564 Predicted membrane protein [Function unknown]; Region: COG1289 935296001565 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 935296001566 hypothetical protein; Provisional; Region: PRK05423 935296001567 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 935296001568 homotrimer interface [polypeptide binding]; other site 935296001569 Walker A motif; other site 935296001570 GTP binding site [chemical binding]; other site 935296001571 Walker B motif; other site 935296001572 cobalamin synthase; Reviewed; Region: cobS; PRK00235 935296001573 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 935296001574 putative dimer interface [polypeptide binding]; other site 935296001575 active site pocket [active] 935296001576 putative cataytic base [active] 935296001577 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 935296001578 NAD binding site [chemical binding]; other site 935296001579 HPP family; Region: HPP; pfam04982 935296001580 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 935296001581 shikimate transporter; Provisional; Region: PRK09952 935296001582 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 935296001583 putative substrate translocation pore; other site 935296001584 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 935296001585 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 935296001586 metal binding site [ion binding]; metal-binding site 935296001587 active site 935296001588 I-site; other site 935296001589 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 935296001590 Domain of unknown function (DUF1971); Region: DUF1971; cl17717 935296001591 Domain of unknown function (DUF1869); Region: DUF1869; pfam08956 935296001592 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 935296001593 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296001594 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 935296001595 dimerization interface [polypeptide binding]; other site 935296001596 substrate binding pocket [chemical binding]; other site 935296001597 Integrase core domain; Region: rve_2; pfam13333 935296001598 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 935296001599 Integrase core domain; Region: rve; pfam00665 935296001600 Integrase core domain; Region: rve_3; pfam13683 935296001601 Transposase; Region: HTH_Tnp_1; pfam01527 935296001602 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 935296001603 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 935296001604 Condensation domain; Region: Condensation; cl19241 935296001605 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 935296001606 acyl-activating enzyme (AAE) consensus motif; other site 935296001607 AMP binding site [chemical binding]; other site 935296001608 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 935296001609 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 935296001610 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 935296001611 active site 935296001612 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 935296001613 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 935296001614 short chain dehydrogenase; Region: adh_short; pfam00106 935296001615 putative NADP binding site [chemical binding]; other site 935296001616 active site 935296001617 Polyketide synthase dehydratase; Region: PS-DH; pfam14765 935296001618 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 935296001619 Enoylreductase; Region: PKS_ER; smart00829 935296001620 NAD(P) binding site [chemical binding]; other site 935296001621 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 935296001622 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 935296001623 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 935296001624 active site 935296001625 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 935296001626 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 935296001627 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 935296001628 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 935296001629 acyl carrier protein; Provisional; Region: PRK07081 935296001630 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 935296001631 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 935296001632 active site 935296001633 Acyl transferase domain; Region: Acyl_transf_1; cl08282 935296001634 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 935296001635 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 935296001636 acyl-activating enzyme (AAE) consensus motif; other site 935296001637 AMP binding site [chemical binding]; other site 935296001638 Condensation domain; Region: Condensation; pfam00668 935296001639 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 935296001640 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 935296001641 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 935296001642 acyl-activating enzyme (AAE) consensus motif; other site 935296001643 AMP binding site [chemical binding]; other site 935296001644 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 935296001645 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 935296001646 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 935296001647 active site 935296001648 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 935296001649 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 935296001650 Condensation domain; Region: Condensation; pfam00668 935296001651 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 935296001652 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 935296001653 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 935296001654 acyl-activating enzyme (AAE) consensus motif; other site 935296001655 AMP binding site [chemical binding]; other site 935296001656 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 935296001657 Condensation domain; Region: Condensation; cl19241 935296001658 Nonribosomal peptide synthase; Region: NRPS; pfam08415 935296001659 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 935296001660 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 935296001661 active site 935296001662 CoA binding site [chemical binding]; other site 935296001663 AMP binding site [chemical binding]; other site 935296001664 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 935296001665 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 935296001666 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 935296001667 active site 935296001668 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 935296001669 Condensation domain; Region: Condensation; cl19241 935296001670 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 935296001671 Nonribosomal peptide synthase; Region: NRPS; pfam08415 935296001672 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 935296001673 acyl-activating enzyme (AAE) consensus motif; other site 935296001674 AMP binding site [chemical binding]; other site 935296001675 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 935296001676 putative FMN binding site [chemical binding]; other site 935296001677 NADPH bind site [chemical binding]; other site 935296001678 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 935296001679 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 935296001680 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; cl18951 935296001681 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_6; cd13146 935296001682 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 935296001683 Condensation domain; Region: Condensation; cl19241 935296001684 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 935296001685 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 935296001686 acyl-activating enzyme (AAE) consensus motif; other site 935296001687 AMP binding site [chemical binding]; other site 935296001688 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 935296001689 Condensation domain; Region: Condensation; cl19241 935296001690 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 935296001691 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 935296001692 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 935296001693 active site 935296001694 Beta-lactamase; Region: Beta-lactamase; pfam00144 935296001695 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 935296001696 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 935296001697 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 935296001698 Domain of unknown function DUF87; Region: DUF87; cl19135 935296001699 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 935296001700 AAA-like domain; Region: AAA_10; pfam12846 935296001701 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 935296001702 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 935296001703 Walker A motif; other site 935296001704 ATP binding site [chemical binding]; other site 935296001705 Walker B motif; other site 935296001706 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 935296001707 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 935296001708 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 935296001709 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 935296001710 VirB7 interaction site; other site 935296001711 VirB8 protein; Region: VirB8; pfam04335 935296001712 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 935296001713 Type IV secretion system proteins; Region: T4SS; pfam07996 935296001714 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 935296001715 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 935296001716 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 935296001717 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 935296001718 Walker B motif; other site 935296001719 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 935296001720 N-acetyl-D-glucosamine binding site [chemical binding]; other site 935296001721 catalytic residue [active] 935296001722 Haemolysin expression modulating protein; Region: HHA; cl11501 935296001723 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 935296001724 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 935296001725 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 935296001726 N-terminal plug; other site 935296001727 ligand-binding site [chemical binding]; other site 935296001728 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 935296001729 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 935296001730 acyl-activating enzyme (AAE) consensus motif; other site 935296001731 active site 935296001732 AMP binding site [chemical binding]; other site 935296001733 substrate binding site [chemical binding]; other site 935296001734 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 935296001735 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 935296001736 Oxidoreductase (NAD-binding), involved in siderophore biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PchG; COG4693 935296001737 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 935296001738 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 935296001739 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 935296001740 active site 935296001741 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 935296001742 Methyltransferase domain; Region: Methyltransf_12; pfam08242 935296001743 Methyltransferase domain; Region: Methyltransf_23; pfam13489 935296001744 ketoreductase (KR) and fatty acid synthase (FAS), complex (x) SDRs; Region: KR_FAS_SDR_x; cd05274 935296001745 short chain dehydrogenase; Region: adh_short; pfam00106 935296001746 NADP binding site [chemical binding]; other site 935296001747 active site 935296001748 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 935296001749 Condensation domain; Region: Condensation; cl19241 935296001750 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 935296001751 Nonribosomal peptide synthase; Region: NRPS; pfam08415 935296001752 Methyltransferase domain; Region: Methyltransf_12; pfam08242 935296001753 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 935296001754 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 935296001755 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 935296001756 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 935296001757 Condensation domain; Region: Condensation; pfam00668 935296001758 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 935296001759 Nonribosomal peptide synthase; Region: NRPS; pfam08415 935296001760 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 935296001761 acyl-activating enzyme (AAE) consensus motif; other site 935296001762 AMP binding site [chemical binding]; other site 935296001763 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 935296001764 S-adenosylmethionine binding site [chemical binding]; other site 935296001765 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 935296001766 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 935296001767 Condensation domain; Region: Condensation; cl19241 935296001768 Nonribosomal peptide synthase; Region: NRPS; pfam08415 935296001769 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 935296001770 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 935296001771 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296001772 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 935296001773 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 935296001774 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296001775 Walker A/P-loop; other site 935296001776 ATP binding site [chemical binding]; other site 935296001777 Q-loop/lid; other site 935296001778 ABC transporter signature motif; other site 935296001779 Walker B; other site 935296001780 D-loop; other site 935296001781 H-loop/switch region; other site 935296001782 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 935296001783 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 935296001784 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296001785 Walker A/P-loop; other site 935296001786 ATP binding site [chemical binding]; other site 935296001787 Q-loop/lid; other site 935296001788 ABC transporter signature motif; other site 935296001789 Walker B; other site 935296001790 D-loop; other site 935296001791 H-loop/switch region; other site 935296001792 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 935296001793 putative substrate translocation pore; other site 935296001794 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 935296001795 salicylate synthase Irp9; Reviewed; Region: PRK06772 935296001796 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 935296001797 integrase; Provisional; Region: PRK09692 935296001798 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 935296001799 active site 935296001800 Int/Topo IB signature motif; other site 935296001801 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 935296001802 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 935296001803 putative ligand binding residues [chemical binding]; other site 935296001804 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 935296001805 ABC-ATPase subunit interface; other site 935296001806 dimer interface [polypeptide binding]; other site 935296001807 putative PBP binding regions; other site 935296001808 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 935296001809 putative DNA binding helix; other site 935296001810 dimer interface [polypeptide binding]; other site 935296001811 structural Zn2+ binding site [ion binding]; other site 935296001812 metal binding site 1 [ion binding]; metal-binding site 935296001813 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 935296001814 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 935296001815 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 935296001816 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 935296001817 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 935296001818 G1 box; other site 935296001819 GTP/Mg2+ binding site [chemical binding]; other site 935296001820 G2 box; other site 935296001821 Switch I region; other site 935296001822 G3 box; other site 935296001823 Switch II region; other site 935296001824 G4 box; other site 935296001825 G5 box; other site 935296001826 Nucleoside recognition; Region: Gate; pfam07670 935296001827 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 935296001828 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 935296001829 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 935296001830 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 935296001831 active site 935296001832 HIGH motif; other site 935296001833 KMSKS motif; other site 935296001834 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 935296001835 tRNA binding surface [nucleotide binding]; other site 935296001836 anticodon binding site; other site 935296001837 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 935296001838 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 935296001839 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 935296001840 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 935296001841 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 935296001842 putative GTP cyclohydrolase; Provisional; Region: PRK13674 935296001843 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 935296001844 putative CoA binding site [chemical binding]; other site 935296001845 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 935296001846 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 935296001847 ABC-ATPase subunit interface; other site 935296001848 dimer interface [polypeptide binding]; other site 935296001849 putative PBP binding regions; other site 935296001850 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 935296001851 ABC-ATPase subunit interface; other site 935296001852 dimer interface [polypeptide binding]; other site 935296001853 putative PBP binding regions; other site 935296001854 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 935296001855 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 935296001856 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 935296001857 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 935296001858 metal binding site [ion binding]; metal-binding site 935296001859 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 935296001860 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 935296001861 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 935296001862 active site 935296001863 dimer interface [polypeptide binding]; other site 935296001864 motif 1; other site 935296001865 motif 2; other site 935296001866 motif 3; other site 935296001867 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 935296001868 anticodon binding site; other site 935296001869 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 935296001870 putative active site [active] 935296001871 Zn binding site [ion binding]; other site 935296001872 dihydroorotase; Reviewed; Region: PRK09236 935296001873 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 935296001874 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 935296001875 active site 935296001876 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_aspartate_rich; cd04823 935296001877 dimer interface [polypeptide binding]; other site 935296001878 allosteric magnesium binding site [ion binding]; other site 935296001879 active site 935296001880 aspartate-rich active site metal binding site; other site 935296001881 Schiff base residues; other site 935296001882 FAD dependent oxidoreductase; Region: DAO; pfam01266 935296001883 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935296001884 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 935296001885 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 935296001886 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 935296001887 intersubunit interface [polypeptide binding]; other site 935296001888 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 935296001889 ABC-ATPase subunit interface; other site 935296001890 dimer interface [polypeptide binding]; other site 935296001891 putative PBP binding regions; other site 935296001892 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 935296001893 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 935296001894 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 935296001895 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 935296001896 integrase; Provisional; Region: PRK09692 935296001897 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 935296001898 active site 935296001899 Int/Topo IB signature motif; other site 935296001900 MATE family multidrug exporter; Provisional; Region: PRK10189 935296001901 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 935296001902 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 935296001903 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935296001904 DNA-binding site [nucleotide binding]; DNA binding site 935296001905 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 935296001906 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296001907 homodimer interface [polypeptide binding]; other site 935296001908 catalytic residue [active] 935296001909 ATP-grasp domain; Region: ATP-grasp_4; cl17255 935296001910 multidrug resistance protein MdtH; Provisional; Region: PRK11646 935296001911 AMP nucleosidase; Provisional; Region: PRK08292 935296001912 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 935296001913 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 935296001914 Polymyxin resistance protein PmrD; Region: PmrD; cl12732 935296001915 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 935296001916 Putative lysophospholipase; Region: Hydrolase_4; cl19140 935296001917 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 935296001918 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 935296001919 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 935296001920 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 935296001921 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296001922 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 935296001923 putative dimerization interface [polypeptide binding]; other site 935296001924 transcriptional regulator Cbl; Reviewed; Region: cbl; PRK12679 935296001925 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 935296001926 dimerization interface [polypeptide binding]; other site 935296001927 L,D-transpeptidase; Provisional; Region: PRK10190 935296001928 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 935296001929 Protein of unknown function (DUF2396); Region: DUF2396; cl09868 935296001930 DgsA anti-repressor MtfA; Provisional; Region: PRK15410 935296001931 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 935296001932 trimer interface [polypeptide binding]; other site 935296001933 eyelet of channel; other site 935296001934 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 935296001935 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 935296001936 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 935296001937 Zn2+ binding site [ion binding]; other site 935296001938 Mg2+ binding site [ion binding]; other site 935296001939 DNA cytosine methylase; Provisional; Region: PRK10458 935296001940 Transglycosylase; Region: Transgly; cl19357 935296001941 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 935296001942 cofactor binding site; other site 935296001943 DNA binding site [nucleotide binding] 935296001944 substrate interaction site [chemical binding]; other site 935296001945 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 935296001946 additional DNA contacts [nucleotide binding]; other site 935296001947 mismatch recognition site; other site 935296001948 active site 935296001949 zinc binding site [ion binding]; other site 935296001950 DNA intercalation site [nucleotide binding]; other site 935296001951 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 935296001952 EamA-like transporter family; Region: EamA; pfam00892 935296001953 EamA-like transporter family; Region: EamA; pfam00892 935296001954 Protein of unknown function (DUF808); Region: DUF808; cl01002 935296001955 Uncharacterized small protein (DUF2158); Region: DUF2158; cl02293 935296001956 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 935296001957 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 935296001958 metal binding site [ion binding]; metal-binding site 935296001959 active site 935296001960 I-site; other site 935296001961 Protein of unknown function (DUF2525); Region: DUF2525; pfam10733 935296001962 hypothetical protein; Provisional; Region: PRK10708 935296001963 colanic acid capsular biosynthesis activation protein A; Provisional; Region: rcsA; PRK15411 935296001964 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 935296001965 DNA binding residues [nucleotide binding] 935296001966 dimerization interface [polypeptide binding]; other site 935296001967 lipoprotein; Provisional; Region: PRK10397 935296001968 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 935296001969 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 935296001970 active site 935296001971 Na/Ca binding site [ion binding]; other site 935296001972 catalytic site [active] 935296001973 cystine transporter subunit; Provisional; Region: PRK11260 935296001974 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 935296001975 substrate binding pocket [chemical binding]; other site 935296001976 membrane-bound complex binding site; other site 935296001977 hinge residues; other site 935296001978 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 935296001979 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296001980 catalytic residue [active] 935296001981 amino acid ABC transporter permease; Provisional; Region: PRK15100 935296001982 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 935296001983 dimer interface [polypeptide binding]; other site 935296001984 conserved gate region; other site 935296001985 putative PBP binding loops; other site 935296001986 ABC-ATPase subunit interface; other site 935296001987 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 935296001988 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 935296001989 Walker A/P-loop; other site 935296001990 ATP binding site [chemical binding]; other site 935296001991 Q-loop/lid; other site 935296001992 ABC transporter signature motif; other site 935296001993 Walker B; other site 935296001994 D-loop; other site 935296001995 H-loop/switch region; other site 935296001996 CoA-transferase family III; Region: CoA_transf_3; cl19215 935296001997 CoA-transferase family III; Region: CoA_transf_3; pfam02515 935296001998 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 935296001999 Autoinducer binding domain; Region: Autoind_bind; pfam03472 935296002000 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 935296002001 DNA binding residues [nucleotide binding] 935296002002 dimerization interface [polypeptide binding]; other site 935296002003 hypothetical protein; Provisional; Region: PRK10613 935296002004 response regulator; Provisional; Region: PRK09483 935296002005 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 935296002006 active site 935296002007 phosphorylation site [posttranslational modification] 935296002008 intermolecular recognition site; other site 935296002009 dimerization interface [polypeptide binding]; other site 935296002010 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 935296002011 DNA binding residues [nucleotide binding] 935296002012 dimerization interface [polypeptide binding]; other site 935296002013 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 935296002014 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 935296002015 GIY-YIG motif/motif A; other site 935296002016 active site 935296002017 catalytic site [active] 935296002018 putative DNA binding site [nucleotide binding]; other site 935296002019 metal binding site [ion binding]; metal-binding site 935296002020 UvrB/uvrC motif; Region: UVR; pfam02151 935296002021 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 935296002022 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 935296002023 phosphatidylglycerophosphate synthetase; Provisional; Region: PRK10832 935296002024 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 935296002025 Lambda integrase, C-terminal catalytic domain. Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They belong to the superfamily...; Region: INT_Lambda_C; cd00800 935296002026 dimer interface [polypeptide binding]; other site 935296002027 active site 935296002028 Int/Topo IB signature motif; other site 935296002029 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 935296002030 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 935296002031 exonuclease VIII; Reviewed; Region: PRK09709 935296002032 DNA replication and checkpoint protein; Region: Drc1-Sld2; pfam11719 935296002033 transcriptional repressor DicA; Reviewed; Region: PRK09706 935296002034 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 935296002035 non-specific DNA binding site [nucleotide binding]; other site 935296002036 salt bridge; other site 935296002037 sequence-specific DNA binding site [nucleotide binding]; other site 935296002038 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 935296002039 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 935296002040 replicative DNA helicase; Region: DnaB; TIGR00665 935296002041 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 935296002042 Walker A motif; other site 935296002043 ATP binding site [chemical binding]; other site 935296002044 Walker B motif; other site 935296002045 DNA binding loops [nucleotide binding] 935296002046 DNA polymerase III, theta subunit; Region: DNA_pol3_theta; cl11635 935296002047 MT-A70; Region: MT-A70; cl01947 935296002048 Protein of unknown function (DUF1367); Region: DUF1367; pfam07105 935296002049 HTH domain; Region: HTH_11; cl17392 935296002050 Bacteriophage head to tail connecting protein; Region: Head-tail_con; pfam12236 935296002051 putative protease; Region: PHA00666 935296002052 hypothetical protein; Region: PHA00662 935296002053 hypothetical protein; Region: PHA00661 935296002054 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 935296002055 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296002056 Coenzyme A binding pocket [chemical binding]; other site 935296002057 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 935296002058 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 935296002059 N-acetyl-D-glucosamine binding site [chemical binding]; other site 935296002060 catalytic residue [active] 935296002061 structural protein; Region: PHA01972 935296002062 VacB and RNase II family 3'-5' exoribonucleases; Region: 3_prime_RNase; TIGR00358 935296002063 Phage T7 tail fibre protein; Region: Phage_T7_tail; pfam03906 935296002064 Lysis protein S; Region: Lysis_S; pfam04971 935296002065 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 935296002066 catalytic residues [active] 935296002067 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 935296002068 inhibitor site; inhibition site 935296002069 active site 935296002070 dimer interface [polypeptide binding]; other site 935296002071 catalytic residue [active] 935296002072 Protein of unknown function (DUF805); Region: DUF805; pfam05656 935296002073 Short C-terminal domain; Region: SHOCT; pfam09851 935296002074 hypothetical protein; Provisional; Region: PRK10396 935296002075 yecA family protein; Region: ygfB_yecA; TIGR02292 935296002076 SEC-C motif; Region: SEC-C; cl19389 935296002077 tyrosine transporter TyrP; Provisional; Region: PRK15132 935296002078 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 935296002079 probable metal-binding protein; Region: matur_matur; TIGR03853 935296002080 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 935296002081 Ferritin-like domain; Region: Ferritin; pfam00210 935296002082 ferroxidase diiron center [ion binding]; other site 935296002083 hypothetical protein; Provisional; Region: PRK09273 935296002084 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 935296002085 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 935296002086 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 935296002087 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935296002088 putative substrate translocation pore; other site 935296002089 Protein of unknown function (DUF2766); Region: DUF2766; pfam10964 935296002090 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 935296002091 Ferritin-like domain; Region: Ferritin; pfam00210 935296002092 ferroxidase diiron center [ion binding]; other site 935296002093 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 935296002094 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 935296002095 ligand binding site [chemical binding]; other site 935296002096 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 935296002097 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 935296002098 Walker A/P-loop; other site 935296002099 ATP binding site [chemical binding]; other site 935296002100 Q-loop/lid; other site 935296002101 ABC transporter signature motif; other site 935296002102 Walker B; other site 935296002103 D-loop; other site 935296002104 H-loop/switch region; other site 935296002105 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 935296002106 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 935296002107 TM-ABC transporter signature motif; other site 935296002108 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187 935296002109 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 935296002110 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 935296002111 active site 935296002112 motif I; other site 935296002113 motif II; other site 935296002114 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 935296002115 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 935296002116 active site 935296002117 homotetramer interface [polypeptide binding]; other site 935296002118 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 935296002119 Ligand Binding Site [chemical binding]; other site 935296002120 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 935296002121 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 935296002122 putative substrate translocation pore; other site 935296002123 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 935296002124 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 935296002125 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 935296002126 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 935296002127 active site 935296002128 HIGH motif; other site 935296002129 KMSK motif region; other site 935296002130 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 935296002131 tRNA binding surface [nucleotide binding]; other site 935296002132 anticodon binding site; other site 935296002133 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 935296002134 putative metal binding site [ion binding]; other site 935296002135 copper homeostasis protein CutC; Provisional; Region: PRK11572 935296002136 tRNA (mo5U34)-methyltransferase; Region: TIGR00452 935296002137 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 935296002138 S-adenosylmethionine binding site [chemical binding]; other site 935296002139 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 935296002140 S-adenosylmethionine binding site [chemical binding]; other site 935296002141 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 935296002142 hypothetical protein; Provisional; Region: PRK10302 935296002143 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 935296002144 catalytic triad [active] 935296002145 conserved cis-peptide bond; other site 935296002146 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 935296002147 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 935296002148 dimer interface [polypeptide binding]; other site 935296002149 anticodon binding site; other site 935296002150 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 935296002151 homodimer interface [polypeptide binding]; other site 935296002152 motif 1; other site 935296002153 active site 935296002154 motif 2; other site 935296002155 GAD domain; Region: GAD; pfam02938 935296002156 motif 3; other site 935296002157 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 935296002158 nudix motif; other site 935296002159 hypothetical protein; Validated; Region: PRK00110 935296002160 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 935296002161 active site 935296002162 putative DNA-binding cleft [nucleotide binding]; other site 935296002163 dimer interface [polypeptide binding]; other site 935296002164 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 935296002165 RuvA N terminal domain; Region: RuvA_N; pfam01330 935296002166 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 935296002167 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 935296002168 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 935296002169 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 935296002170 Walker A motif; other site 935296002171 ATP binding site [chemical binding]; other site 935296002172 Walker B motif; other site 935296002173 arginine finger; other site 935296002174 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 935296002175 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 935296002176 ABC-ATPase subunit interface; other site 935296002177 dimer interface [polypeptide binding]; other site 935296002178 putative PBP binding regions; other site 935296002179 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 935296002180 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 935296002181 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 935296002182 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 935296002183 metal binding site [ion binding]; metal-binding site 935296002184 putative peptidase; Provisional; Region: PRK11649 935296002185 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 935296002186 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 935296002187 Peptidase family M23; Region: Peptidase_M23; pfam01551 935296002188 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 935296002189 putative acyl-acceptor binding pocket; other site 935296002190 pyruvate kinase; Provisional; Region: PRK05826 935296002191 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 935296002192 domain interfaces; other site 935296002193 active site 935296002194 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 935296002195 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 935296002196 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 935296002197 putative active site [active] 935296002198 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 935296002199 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 935296002200 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 935296002201 phosphogluconate dehydratase; Validated; Region: PRK09054 935296002202 Entner-Doudoroff aldolase; Region: eda; TIGR01182 935296002203 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 935296002204 active site 935296002205 intersubunit interface [polypeptide binding]; other site 935296002206 catalytic residue [active] 935296002207 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 935296002208 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935296002209 ATP-grasp domain; Region: ATP-grasp; pfam02222 935296002210 YebG protein; Region: YebG; cl01217 935296002211 Protein of unknown function (DUF533); Region: DUF533; pfam04391 935296002212 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 935296002213 putative metal binding site [ion binding]; other site 935296002214 protease 2; Provisional; Region: PRK10115 935296002215 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 935296002216 exodeoxyribonuclease X; Provisional; Region: PRK07983 935296002217 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 935296002218 active site 935296002219 catalytic site [active] 935296002220 substrate binding site [chemical binding]; other site 935296002221 DNA polymerase III subunit theta; Reviewed; Region: PRK10969 935296002222 CopC domain; Region: CopC; cl01012 935296002223 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 935296002224 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 935296002225 Spore Coat Protein U domain; Region: SCPU; pfam05229 935296002226 Uncharacterized secreted protein [Function unknown]; Region: COG5430 935296002227 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 935296002228 Outer membrane usher protein; Region: Usher; pfam00577 935296002229 PapC C-terminal domain; Region: PapC_C; pfam13953 935296002230 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 935296002231 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 935296002232 Spore Coat Protein U domain; Region: SCPU; pfam05229 935296002233 Uncharacterized secreted protein [Function unknown]; Region: COG5430 935296002234 Protein of unknown function (DUF535); Region: DUF535; pfam04393 935296002235 serine/threonine protein phosphatase 1; Provisional; Region: pphA; PRK11439 935296002236 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 935296002237 Protein of unknown function (DUF1480); Region: DUF1480; pfam07351 935296002238 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 935296002239 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 935296002240 S-adenosylmethionine binding site [chemical binding]; other site 935296002241 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; cl19835 935296002242 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 935296002243 mce related protein; Region: MCE; pfam02470 935296002244 mce related protein; Region: MCE; pfam02470 935296002245 mce related protein; Region: MCE; pfam02470 935296002246 mce related protein; Region: MCE; pfam02470 935296002247 mce related protein; Region: MCE; pfam02470 935296002248 mce related protein; Region: MCE; pfam02470 935296002249 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 935296002250 Paraquat-inducible protein A; Region: PqiA; pfam04403 935296002251 Paraquat-inducible protein A; Region: PqiA; pfam04403 935296002252 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 935296002253 ProP expression regulator; Provisional; Region: PRK04950 935296002254 putative RNA binding sites [nucleotide binding]; other site 935296002255 carboxy-terminal protease; Provisional; Region: PRK11186 935296002256 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 935296002257 protein binding site [polypeptide binding]; other site 935296002258 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 935296002259 Catalytic dyad [active] 935296002260 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 935296002261 heat shock protein HtpX; Provisional; Region: PRK05457 935296002262 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 935296002263 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935296002264 putative substrate translocation pore; other site 935296002265 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 935296002266 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 935296002267 dimerization interface [polypeptide binding]; other site 935296002268 putative Zn2+ binding site [ion binding]; other site 935296002269 putative DNA binding site [nucleotide binding]; other site 935296002270 Bacterial transcriptional regulator; Region: IclR; pfam01614 935296002271 YobH-like protein; Region: YobH; pfam13996 935296002272 PhoPQ regulatory protein; Provisional; Region: PRK10299 935296002273 YebO-like protein; Region: YebO; pfam13974 935296002274 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 935296002275 DNA-binding site [nucleotide binding]; DNA binding site 935296002276 RNA-binding motif; other site 935296002277 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 935296002278 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 935296002279 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 935296002280 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 935296002281 S-adenosylmethionine binding site [chemical binding]; other site 935296002282 hypothetical protein; Provisional; Region: PRK11469 935296002283 Domain of unknown function DUF; Region: DUF204; pfam02659 935296002284 Domain of unknown function DUF; Region: DUF204; pfam02659 935296002285 hypothetical protein; Provisional; Region: PRK02913 935296002286 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 935296002287 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 935296002288 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 935296002289 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 935296002290 active pocket/dimerization site; other site 935296002291 active site 935296002292 phosphorylation site [posttranslational modification] 935296002293 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 935296002294 active site 935296002295 phosphorylation site [posttranslational modification] 935296002296 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 935296002297 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 935296002298 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 935296002299 Transporter associated domain; Region: CorC_HlyC; smart01091 935296002300 phage resistance protein; Provisional; Region: PRK10551 935296002301 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 935296002302 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 935296002303 L-serine deaminase; Provisional; Region: PRK15023 935296002304 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 935296002305 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 935296002306 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 935296002307 putative active site [active] 935296002308 putative CoA binding site [chemical binding]; other site 935296002309 nudix motif; other site 935296002310 metal binding site [ion binding]; metal-binding site 935296002311 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 935296002312 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 935296002313 aminodeoxychorismate synthase, component I, bacterial clade; Region: pabB; TIGR00553 935296002314 hypothetical protein; Provisional; Region: PRK05114 935296002315 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 935296002316 homotrimer interaction site [polypeptide binding]; other site 935296002317 putative active site [active] 935296002318 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 935296002319 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 935296002320 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cd09708 935296002321 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 935296002322 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 935296002323 Glycoprotease family; Region: Peptidase_M22; pfam00814 935296002324 Starvation-inducible outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: Slp; COG3065 935296002325 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 935296002326 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 935296002327 acyl-activating enzyme (AAE) consensus motif; other site 935296002328 putative AMP binding site [chemical binding]; other site 935296002329 putative active site [active] 935296002330 putative CoA binding site [chemical binding]; other site 935296002331 ribonuclease D; Provisional; Region: PRK10829 935296002332 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 935296002333 catalytic site [active] 935296002334 putative active site [active] 935296002335 putative substrate binding site [chemical binding]; other site 935296002336 Helicase and RNase D C-terminal; Region: HRDC; smart00341 935296002337 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 935296002338 cell division inhibitor MinD; Provisional; Region: PRK10818 935296002339 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 935296002340 P-loop; other site 935296002341 ADP binding residues [chemical binding]; other site 935296002342 Switch I; other site 935296002343 Switch II; other site 935296002344 septum formation inhibitor; Reviewed; Region: minC; PRK03511 935296002345 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 935296002346 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 935296002347 YcgL domain; Region: YcgL; cl01189 935296002348 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 935296002349 hypothetical protein; Provisional; Region: PRK10691 935296002350 hypothetical protein; Provisional; Region: PRK05170 935296002351 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 935296002352 active site 935296002353 catalytic triad [active] 935296002354 oxyanion hole [active] 935296002355 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 935296002356 disulfide bond formation protein B; Provisional; Region: PRK01749 935296002357 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 935296002358 fatty acid metabolism regulator; Provisional; Region: PRK04984 935296002359 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935296002360 DNA-binding site [nucleotide binding]; DNA binding site 935296002361 FadR C-terminal domain; Region: FadR_C; pfam07840 935296002362 SpoVR family protein; Provisional; Region: PRK11767 935296002363 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 935296002364 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 935296002365 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 935296002366 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 935296002367 catalytic residue [active] 935296002368 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 935296002369 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 935296002370 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 935296002371 TrkA-C domain; Region: TrkA_C; pfam02080 935296002372 Transporter associated domain; Region: CorC_HlyC; smart01091 935296002373 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 935296002374 dimer interface [polypeptide binding]; other site 935296002375 catalytic triad [active] 935296002376 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 935296002377 N-acetyl-D-glucosamine binding site [chemical binding]; other site 935296002378 catalytic residue [active] 935296002379 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 935296002380 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 935296002381 N-terminal plug; other site 935296002382 ligand-binding site [chemical binding]; other site 935296002383 trehalase; Provisional; Region: treA; PRK13271 935296002384 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 935296002385 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 935296002386 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296002387 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296002388 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 935296002389 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 935296002390 putative substrate translocation pore; other site 935296002391 DNA-binding transcriptional activator TdcA; Provisional; Region: PRK10341 935296002392 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296002393 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 935296002394 putative substrate binding pocket [chemical binding]; other site 935296002395 putative dimerization interface [polypeptide binding]; other site 935296002396 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 935296002397 tetramer interface [polypeptide binding]; other site 935296002398 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296002399 catalytic residue [active] 935296002400 threonine/serine transporter TdcC; Provisional; Region: PRK13629 935296002401 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 935296002402 propionate/acetate kinase; Provisional; Region: PRK12379 935296002403 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 935296002404 Pyruvate formate lyase 1; Region: PFL1; cd01678 935296002405 coenzyme A binding site [chemical binding]; other site 935296002406 active site 935296002407 catalytic residues [active] 935296002408 glycine loop; other site 935296002409 L-serine dehydratase TdcG; Provisional; Region: PRK15040 935296002410 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 935296002411 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 935296002412 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 935296002413 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 935296002414 active site 935296002415 Tyrosine phosphatase family; Region: Y_phosphatase3; cl19170 935296002416 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 935296002417 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 935296002418 Walker A/P-loop; other site 935296002419 ATP binding site [chemical binding]; other site 935296002420 Q-loop/lid; other site 935296002421 ABC transporter signature motif; other site 935296002422 Walker B; other site 935296002423 D-loop; other site 935296002424 H-loop/switch region; other site 935296002425 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 935296002426 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 935296002427 putative ligand binding residues [chemical binding]; other site 935296002428 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 935296002429 ABC-ATPase subunit interface; other site 935296002430 dimer interface [polypeptide binding]; other site 935296002431 putative PBP binding regions; other site 935296002432 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 935296002433 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 935296002434 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 935296002435 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 935296002436 ligand binding site [chemical binding]; other site 935296002437 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 935296002438 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 935296002439 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 935296002440 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 935296002441 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 935296002442 PAAR motif; Region: PAAR_motif; pfam05488 935296002443 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 935296002444 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 935296002445 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 935296002446 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 935296002447 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 935296002448 Uncharacterized alpha/beta hydrolase domain (DUF2235); Region: DUF2235; cl01480 935296002449 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 935296002450 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 935296002451 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 935296002452 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 935296002453 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 935296002454 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 935296002455 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 935296002456 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 935296002457 active site 935296002458 DNA binding site [nucleotide binding] 935296002459 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 935296002460 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 935296002461 Catalytic site [active] 935296002462 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 935296002463 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 935296002464 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 935296002465 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 935296002466 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 935296002467 RHS Repeat; Region: RHS_repeat; pfam05593 935296002468 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 935296002469 RHS Repeat; Region: RHS_repeat; pfam05593 935296002470 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 935296002471 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 935296002472 RHS Repeat; Region: RHS_repeat; pfam05593 935296002473 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 935296002474 DNA binding residues [nucleotide binding] 935296002475 RHS Repeat; Region: RHS_repeat; pfam05593 935296002476 RHS protein; Region: RHS; pfam03527 935296002477 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 935296002478 Domain of unknown function (DUF4291); Region: DUF4291; pfam14124 935296002479 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 935296002480 RHS protein; Region: RHS; pfam03527 935296002481 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 935296002482 Immunity protein 14; Region: Imm14; pfam15428 935296002483 PAS domain S-box; Region: sensory_box; TIGR00229 935296002484 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 935296002485 putative active site [active] 935296002486 heme pocket [chemical binding]; other site 935296002487 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 935296002488 metal binding site [ion binding]; metal-binding site 935296002489 active site 935296002490 I-site; other site 935296002491 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 935296002492 dimer interface [polypeptide binding]; other site 935296002493 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 935296002494 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 935296002495 dimerization interface [polypeptide binding]; other site 935296002496 GAF domain; Region: GAF_3; pfam13492 935296002497 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 935296002498 metal binding site [ion binding]; metal-binding site 935296002499 active site 935296002500 I-site; other site 935296002501 HD domain; Region: HD; pfam01966 935296002502 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 935296002503 Zn2+ binding site [ion binding]; other site 935296002504 Mg2+ binding site [ion binding]; other site 935296002505 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 935296002506 putative acyl-acceptor binding pocket; other site 935296002507 leucine export protein LeuE; Provisional; Region: PRK10958 935296002508 Protein of unknown function (DUF2534); Region: DUF2534; pfam10749 935296002509 GAF domain; Region: GAF_2; pfam13185 935296002510 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 935296002511 metal binding site [ion binding]; metal-binding site 935296002512 active site 935296002513 I-site; other site 935296002514 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 935296002515 Uncharacterized conserved protein [Function unknown]; Region: COG3189 935296002516 hypothetical protein; Validated; Region: PRK06186 935296002517 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 935296002518 conserved cys residue [active] 935296002519 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 935296002520 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 935296002521 putative substrate translocation pore; other site 935296002522 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 935296002523 Predicted membrane protein [Function unknown]; Region: COG2707 935296002524 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 935296002525 putative deacylase active site [active] 935296002526 Cache domain; Region: Cache_1; pfam02743 935296002527 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 935296002528 metal binding site [ion binding]; metal-binding site 935296002529 active site 935296002530 I-site; other site 935296002531 Uncharacterized conserved protein [Function unknown]; Region: COG2718 935296002532 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 935296002533 metal ion-dependent adhesion site (MIDAS); other site 935296002534 PrkA family serine protein kinase; Provisional; Region: PRK15455 935296002535 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 935296002536 Walker A motif; other site 935296002537 ATP binding site [chemical binding]; other site 935296002538 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 935296002539 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 935296002540 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 935296002541 active site 935296002542 phosphate binding residues; other site 935296002543 catalytic residues [active] 935296002544 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 935296002545 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 935296002546 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 935296002547 methionine sulfoxide reductase B; Provisional; Region: PRK00222 935296002548 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3139 935296002549 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 935296002550 Glyco_18 domain; Region: Glyco_18; smart00636 935296002551 active site 935296002552 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 935296002553 catalytic triad [active] 935296002554 metal binding site [ion binding]; metal-binding site 935296002555 conserved cis-peptide bond; other site 935296002556 cytoplasmic asparaginase I; Provisional; Region: ansA; PRK09461 935296002557 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 935296002558 active site 935296002559 homodimer interface [polypeptide binding]; other site 935296002560 protease 4; Provisional; Region: PRK10949 935296002561 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 935296002562 tandem repeat interface [polypeptide binding]; other site 935296002563 oligomer interface [polypeptide binding]; other site 935296002564 active site residues [active] 935296002565 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_1; cd07019 935296002566 tandem repeat interface [polypeptide binding]; other site 935296002567 oligomer interface [polypeptide binding]; other site 935296002568 active site residues [active] 935296002569 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 935296002570 putative FMN binding site [chemical binding]; other site 935296002571 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 935296002572 active site 935296002573 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 935296002574 selenophosphate synthetase; Provisional; Region: PRK00943 935296002575 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 935296002576 dimerization interface [polypeptide binding]; other site 935296002577 putative ATP binding site [chemical binding]; other site 935296002578 DNA topoisomerase III; Provisional; Region: PRK07726 935296002579 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 935296002580 active site 935296002581 putative interdomain interaction site [polypeptide binding]; other site 935296002582 putative metal-binding site [ion binding]; other site 935296002583 putative nucleotide binding site [chemical binding]; other site 935296002584 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 935296002585 domain I; other site 935296002586 DNA binding groove [nucleotide binding] 935296002587 phosphate binding site [ion binding]; other site 935296002588 domain II; other site 935296002589 domain III; other site 935296002590 nucleotide binding site [chemical binding]; other site 935296002591 catalytic site [active] 935296002592 domain IV; other site 935296002593 chaperone protein HchA; Provisional; Region: PRK04155 935296002594 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 935296002595 conserved cys residue [active] 935296002596 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 935296002597 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 935296002598 NAD(P) binding site [chemical binding]; other site 935296002599 glutamate dehydrogenase; Provisional; Region: PRK09414 935296002600 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 935296002601 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 935296002602 NAD(P) binding site [chemical binding]; other site 935296002603 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 935296002604 active site 935296002605 8-oxo-dGMP binding site [chemical binding]; other site 935296002606 nudix motif; other site 935296002607 metal binding site [ion binding]; metal-binding site 935296002608 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 935296002609 Rhodanese Homology Domain; Region: RHOD; smart00450 935296002610 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 935296002611 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 935296002612 active site residue [active] 935296002613 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 935296002614 active site residue [active] 935296002615 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 935296002616 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296002617 Walker A/P-loop; other site 935296002618 ATP binding site [chemical binding]; other site 935296002619 Q-loop/lid; other site 935296002620 ABC transporter signature motif; other site 935296002621 Walker B; other site 935296002622 D-loop; other site 935296002623 H-loop/switch region; other site 935296002624 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 935296002625 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 935296002626 dimer interface [polypeptide binding]; other site 935296002627 conserved gate region; other site 935296002628 putative PBP binding loops; other site 935296002629 ABC-ATPase subunit interface; other site 935296002630 hypothetical protein; Provisional; Region: PRK11622 935296002631 Uncharacterized conserved protein [Function unknown]; Region: COG2128 935296002632 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 935296002633 Uncharacterized conserved protein [Function unknown]; Region: COG0398 935296002634 Uncharacterized conserved protein [Function unknown]; Region: COG0398 935296002635 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 935296002636 putative catalytic site [active] 935296002637 putative phosphate binding site [ion binding]; other site 935296002638 active site 935296002639 metal binding site A [ion binding]; metal-binding site 935296002640 DNA binding site [nucleotide binding] 935296002641 putative AP binding site [nucleotide binding]; other site 935296002642 putative metal binding site B [ion binding]; other site 935296002643 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 935296002644 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 935296002645 inhibitor-cofactor binding pocket; inhibition site 935296002646 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296002647 catalytic residue [active] 935296002648 arginine succinyltransferase; Provisional; Region: PRK10456 935296002649 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 935296002650 NAD(P) binding site [chemical binding]; other site 935296002651 catalytic residues [active] 935296002652 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 935296002653 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 935296002654 putative active site [active] 935296002655 Zn binding site [ion binding]; other site 935296002656 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 935296002657 dimer interface [polypeptide binding]; other site 935296002658 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 935296002659 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 935296002660 GIY-YIG motif/motif A; other site 935296002661 active site 935296002662 catalytic site [active] 935296002663 putative DNA binding site [nucleotide binding]; other site 935296002664 metal binding site [ion binding]; metal-binding site 935296002665 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 935296002666 homodimer interface [polypeptide binding]; other site 935296002667 NAD binding pocket [chemical binding]; other site 935296002668 ATP binding pocket [chemical binding]; other site 935296002669 Mg binding site [ion binding]; other site 935296002670 active-site loop [active] 935296002671 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 935296002672 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 935296002673 active site 935296002674 P-loop; other site 935296002675 phosphorylation site [posttranslational modification] 935296002676 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIC; Provisional; Region: PRK10297 935296002677 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 935296002678 methionine cluster; other site 935296002679 active site 935296002680 phosphorylation site [posttranslational modification] 935296002681 metal binding site [ion binding]; metal-binding site 935296002682 DNA-binding transcriptional regulator ChbR; Provisional; Region: PRK10296 935296002683 Cupin domain; Region: Cupin_2; cl17218 935296002684 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296002685 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 935296002686 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 935296002687 NAD binding site [chemical binding]; other site 935296002688 sugar binding site [chemical binding]; other site 935296002689 divalent metal binding site [ion binding]; other site 935296002690 tetramer (dimer of dimers) interface [polypeptide binding]; other site 935296002691 dimer interface [polypeptide binding]; other site 935296002692 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 935296002693 putative active site [active] 935296002694 YdjC motif; other site 935296002695 Mg binding site [ion binding]; other site 935296002696 putative homodimer interface [polypeptide binding]; other site 935296002697 hydroperoxidase II; Provisional; Region: katE; PRK11249 935296002698 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 935296002699 tetramer interface [polypeptide binding]; other site 935296002700 heme binding pocket [chemical binding]; other site 935296002701 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 935296002702 domain interactions; other site 935296002703 Cell division activator CedA; Region: CedA; cl11674 935296002704 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 935296002705 inner membrane protein; Provisional; Region: PRK11648 935296002706 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 935296002707 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 935296002708 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 935296002709 motif II; other site 935296002710 YniB-like protein; Region: YniB; pfam14002 935296002711 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 935296002712 intracellular septation protein A; Reviewed; Region: PRK00259 935296002713 hypothetical protein; Provisional; Region: PRK02868 935296002714 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 935296002715 outer membrane protein W; Provisional; Region: PRK10959 935296002716 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296002717 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296002718 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 935296002719 dimerization interface [polypeptide binding]; other site 935296002720 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 935296002721 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 935296002722 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 935296002723 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 935296002724 HlyD family secretion protein; Region: HlyD_3; pfam13437 935296002725 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 935296002726 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 935296002727 NAD(P) binding site [chemical binding]; other site 935296002728 Transcriptional regulators [Transcription]; Region: MarR; COG1846 935296002729 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 935296002730 putative DNA binding site [nucleotide binding]; other site 935296002731 putative Zn2+ binding site [ion binding]; other site 935296002732 MarR family; Region: MarR_2; cl17246 935296002733 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 935296002734 substrate binding site [chemical binding]; other site 935296002735 active site 935296002736 catalytic residues [active] 935296002737 heterodimer interface [polypeptide binding]; other site 935296002738 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 935296002739 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296002740 catalytic residue [active] 935296002741 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 935296002742 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 935296002743 active site 935296002744 ribulose/triose binding site [chemical binding]; other site 935296002745 phosphate binding site [ion binding]; other site 935296002746 substrate (anthranilate) binding pocket [chemical binding]; other site 935296002747 product (indole) binding pocket [chemical binding]; other site 935296002748 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 935296002749 active site 935296002750 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK09522 935296002751 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 935296002752 glutamine binding [chemical binding]; other site 935296002753 catalytic triad [active] 935296002754 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 935296002755 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 935296002756 anthranilate synthase component I; Provisional; Region: PRK13564 935296002757 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 935296002758 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 935296002759 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 935296002760 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 935296002761 active site 935296002762 hypothetical protein; Provisional; Region: PRK11630 935296002763 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 935296002764 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 935296002765 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 935296002766 nucleotidyl binding site; other site 935296002767 metal binding site [ion binding]; metal-binding site 935296002768 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 935296002769 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 935296002770 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 935296002771 RNA binding surface [nucleotide binding]; other site 935296002772 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 935296002773 probable active site [active] 935296002774 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 935296002775 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 935296002776 putative substrate translocation pore; other site 935296002777 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 935296002778 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 935296002779 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 935296002780 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 935296002781 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296002782 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 935296002783 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296002784 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 935296002785 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated; Region: PRK05986 935296002786 Escherichia coli K-12 YCIK-like, classical (c) SDRs; Region: Ycik_SDR_c; cd05340 935296002787 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 935296002788 NADP binding site [chemical binding]; other site 935296002789 homodimer interface [polypeptide binding]; other site 935296002790 active site 935296002791 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 935296002792 putative inner membrane peptidase; Provisional; Region: PRK11778 935296002793 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 935296002794 tandem repeat interface [polypeptide binding]; other site 935296002795 oligomer interface [polypeptide binding]; other site 935296002796 active site residues [active] 935296002797 hypothetical protein; Provisional; Region: PRK11037 935296002798 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 935296002799 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 935296002800 active site 935296002801 interdomain interaction site; other site 935296002802 putative metal-binding site [ion binding]; other site 935296002803 nucleotide binding site [chemical binding]; other site 935296002804 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 935296002805 domain I; other site 935296002806 DNA binding groove [nucleotide binding] 935296002807 phosphate binding site [ion binding]; other site 935296002808 domain II; other site 935296002809 domain III; other site 935296002810 nucleotide binding site [chemical binding]; other site 935296002811 catalytic site [active] 935296002812 domain IV; other site 935296002813 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 935296002814 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 935296002815 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 935296002816 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 935296002817 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 935296002818 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296002819 The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold; Region: PBP2_CysB; cd08443 935296002820 substrate binding site [chemical binding]; other site 935296002821 putative dimerization interface [polypeptide binding]; other site 935296002822 aconitate hydratase; Validated; Region: PRK09277 935296002823 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 935296002824 substrate binding site [chemical binding]; other site 935296002825 ligand binding site [chemical binding]; other site 935296002826 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 935296002827 substrate binding site [chemical binding]; other site 935296002828 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 935296002829 dimerization interface [polypeptide binding]; other site 935296002830 active site 935296002831 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 935296002832 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 935296002833 active site 935296002834 Predicted membrane protein [Function unknown]; Region: COG3771 935296002835 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 935296002836 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 935296002837 TPR motif; other site 935296002838 binding surface 935296002839 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 935296002840 binding surface 935296002841 TPR motif; other site 935296002842 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 935296002843 dimer interface [polypeptide binding]; other site 935296002844 active site 935296002845 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 935296002846 putative rRNA binding site [nucleotide binding]; other site 935296002847 lipoprotein; Provisional; Region: PRK10540 935296002848 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 935296002849 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 935296002850 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 935296002851 hypothetical protein; Provisional; Region: PRK13658 935296002852 exoribonuclease II; Provisional; Region: PRK05054 935296002853 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 935296002854 RNB domain; Region: RNB; pfam00773 935296002855 S1 RNA binding domain; Region: S1; pfam00575 935296002856 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 935296002857 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 935296002858 Uncharacterized conserved protein [Function unknown]; Region: COG2128 935296002859 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 935296002860 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 935296002861 NAD binding site [chemical binding]; other site 935296002862 homotetramer interface [polypeptide binding]; other site 935296002863 homodimer interface [polypeptide binding]; other site 935296002864 substrate binding site [chemical binding]; other site 935296002865 active site 935296002866 HutD; Region: HutD; cl01532 935296002867 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 935296002868 Na binding site [ion binding]; other site 935296002869 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 935296002870 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935296002871 Walker A/P-loop; other site 935296002872 ATP binding site [chemical binding]; other site 935296002873 Q-loop/lid; other site 935296002874 ABC transporter signature motif; other site 935296002875 Walker B; other site 935296002876 D-loop; other site 935296002877 H-loop/switch region; other site 935296002878 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 935296002879 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935296002880 Walker A/P-loop; other site 935296002881 ATP binding site [chemical binding]; other site 935296002882 Q-loop/lid; other site 935296002883 ABC transporter signature motif; other site 935296002884 Walker B; other site 935296002885 D-loop; other site 935296002886 H-loop/switch region; other site 935296002887 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 935296002888 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 935296002889 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 935296002890 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 935296002891 dimer interface [polypeptide binding]; other site 935296002892 conserved gate region; other site 935296002893 putative PBP binding loops; other site 935296002894 ABC-ATPase subunit interface; other site 935296002895 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 935296002896 RecT family; Region: RecT; pfam03837 935296002897 Colicin D; Region: Colicin_D; pfam11429 935296002898 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 935296002899 DNA polymerase III, theta subunit; Region: DNA_pol3_theta; pfam06440 935296002900 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 935296002901 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 935296002902 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 935296002903 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 935296002904 Y-family of DNA polymerases; Region: PolY; cl12025 935296002905 Y-family of DNA polymerases; Region: PolY; cl12025 935296002906 hypothetical protein; Provisional; Region: PRK09951 935296002907 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapB; COG4168 935296002908 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 935296002909 dimer interface [polypeptide binding]; other site 935296002910 conserved gate region; other site 935296002911 putative PBP binding loops; other site 935296002912 ABC-ATPase subunit interface; other site 935296002913 antimicrobial peptide ABC transporter periplasmic binding protein SapA; Provisional; Region: PRK15109 935296002914 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 935296002915 peptide binding site [polypeptide binding]; other site 935296002916 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296002917 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 935296002918 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3664 935296002919 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 935296002920 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 935296002921 metal binding site [ion binding]; metal-binding site 935296002922 putative dimer interface [polypeptide binding]; other site 935296002923 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935296002924 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 935296002925 putative substrate translocation pore; other site 935296002926 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 935296002927 putative substrate translocation pore; other site 935296002928 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 935296002929 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 935296002930 Walker A motif; other site 935296002931 ATP binding site [chemical binding]; other site 935296002932 Walker B motif; other site 935296002933 arginine finger; other site 935296002934 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 935296002935 phage shock protein PspA; Provisional; Region: PRK10698 935296002936 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 935296002937 phage shock protein B; Provisional; Region: pspB; PRK09458 935296002938 DNA-binding transcriptional activator PspC; Provisional; Region: PRK10697 935296002939 phage shock protein C; Region: phageshock_pspC; TIGR02978 935296002940 peripheral inner membrane phage-shock protein; Provisional; Region: PRK10497 935296002941 Predicted ATPase [General function prediction only]; Region: COG3106 935296002942 hypothetical protein; Provisional; Region: PRK05415 935296002943 Predicted membrane protein [Function unknown]; Region: COG3768 935296002944 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 935296002945 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 935296002946 putative aromatic amino acid binding site; other site 935296002947 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 935296002948 putative active site [active] 935296002949 heme pocket [chemical binding]; other site 935296002950 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 935296002951 Walker A motif; other site 935296002952 ATP binding site [chemical binding]; other site 935296002953 Walker B motif; other site 935296002954 arginine finger; other site 935296002955 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 935296002956 Putative ammonia monooxygenase; Region: AmoA; pfam05145 935296002957 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 935296002958 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 935296002959 dimer interface [polypeptide binding]; other site 935296002960 catalytic triad [active] 935296002961 peroxidatic and resolving cysteines [active] 935296002962 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 935296002963 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 935296002964 active site 935296002965 Peptidase M14-like domain of Escherichia coli Murein Peptide Amidase A and related proteins; Region: M14_MpaA_like; cd06904 935296002966 putative active site [active] 935296002967 Zn binding site [ion binding]; other site 935296002968 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 935296002969 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 935296002970 Transcriptional regulators [Transcription]; Region: PurR; COG1609 935296002971 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 935296002972 DNA binding site [nucleotide binding] 935296002973 domain linker motif; other site 935296002974 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 935296002975 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 935296002976 active site 935296002977 phosphorylation site [posttranslational modification] 935296002978 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 935296002979 active site 935296002980 P-loop; other site 935296002981 phosphorylation site [posttranslational modification] 935296002982 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 935296002983 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 935296002984 substrate binding site [chemical binding]; other site 935296002985 hexamer interface [polypeptide binding]; other site 935296002986 metal binding site [ion binding]; metal-binding site 935296002987 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 935296002988 active site 935296002989 phosphorylation site [posttranslational modification] 935296002990 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 935296002991 active site 935296002992 P-loop; other site 935296002993 phosphorylation site [posttranslational modification] 935296002994 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 935296002995 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 935296002996 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 935296002997 active site 935296002998 catalytic tetrad [active] 935296002999 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 935296003000 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 935296003001 inhibitor binding site; inhibition site 935296003002 active site 935296003003 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 935296003004 putative symporter YagG; Provisional; Region: PRK09669; cl15392 935296003005 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 935296003006 maltoporin; Provisional; Region: lamB; PRK09360 935296003007 Protein of unknown function (DUF770); Region: DUF770; pfam05591 935296003008 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 935296003009 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 935296003010 Clp amino terminal domain; Region: Clp_N; pfam02861 935296003011 ImpA domain protein; Region: DUF3702; pfam12486 935296003012 intracellular protease, PfpI family; Region: PfpI; TIGR01382 935296003013 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 935296003014 conserved cys residue [active] 935296003015 putative oxidoreductase; Provisional; Region: PRK11579 935296003016 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 935296003017 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 935296003018 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 935296003019 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 935296003020 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 935296003021 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 935296003022 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935296003023 Walker A/P-loop; other site 935296003024 ATP binding site [chemical binding]; other site 935296003025 Q-loop/lid; other site 935296003026 ABC transporter signature motif; other site 935296003027 Walker B; other site 935296003028 D-loop; other site 935296003029 H-loop/switch region; other site 935296003030 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 935296003031 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935296003032 Walker A/P-loop; other site 935296003033 ATP binding site [chemical binding]; other site 935296003034 Q-loop/lid; other site 935296003035 ABC transporter signature motif; other site 935296003036 Walker B; other site 935296003037 D-loop; other site 935296003038 H-loop/switch region; other site 935296003039 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 935296003040 Uncharacterized conserved protein [Function unknown]; Region: COG5476 935296003041 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 935296003042 MlrC C-terminus; Region: MlrC_C; pfam07171 935296003043 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 935296003044 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 935296003045 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 935296003046 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 935296003047 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 935296003048 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 935296003049 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 935296003050 dimer interface [polypeptide binding]; other site 935296003051 conserved gate region; other site 935296003052 putative PBP binding loops; other site 935296003053 ABC-ATPase subunit interface; other site 935296003054 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 935296003055 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 935296003056 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 935296003057 dimer interface [polypeptide binding]; other site 935296003058 conserved gate region; other site 935296003059 putative PBP binding loops; other site 935296003060 ABC-ATPase subunit interface; other site 935296003061 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 935296003062 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 935296003063 nucleotide binding site [chemical binding]; other site 935296003064 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 935296003065 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 935296003066 Cl binding site [ion binding]; other site 935296003067 oligomer interface [polypeptide binding]; other site 935296003068 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 935296003069 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 935296003070 ATP binding site [chemical binding]; other site 935296003071 Mg++ binding site [ion binding]; other site 935296003072 motif III; other site 935296003073 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 935296003074 nucleotide binding region [chemical binding]; other site 935296003075 ATP-binding site [chemical binding]; other site 935296003076 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 935296003077 putative RNA binding site [nucleotide binding]; other site 935296003078 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 935296003079 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 935296003080 Ligand Binding Site [chemical binding]; other site 935296003081 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 935296003082 Ligand Binding Site [chemical binding]; other site 935296003083 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 935296003084 trimer interface [polypeptide binding]; other site 935296003085 eyelet of channel; other site 935296003086 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 935296003087 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 935296003088 dimer interface [polypeptide binding]; other site 935296003089 PYR/PP interface [polypeptide binding]; other site 935296003090 TPP binding site [chemical binding]; other site 935296003091 substrate binding site [chemical binding]; other site 935296003092 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 935296003093 Domain of unknown function; Region: EKR; pfam10371 935296003094 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 935296003095 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 935296003096 TPP-binding site [chemical binding]; other site 935296003097 dimer interface [polypeptide binding]; other site 935296003098 Domain of unknown function (DUF333); Region: DUF333; cl19829 935296003099 META domain; Region: META; cl01245 935296003100 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 935296003101 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 935296003102 putative ligand binding site [chemical binding]; other site 935296003103 putative NAD binding site [chemical binding]; other site 935296003104 catalytic site [active] 935296003105 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 935296003106 hypothetical protein; Provisional; Region: PRK10695 935296003107 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 935296003108 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3784 935296003109 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 935296003110 AraC-binding-like domain; Region: AraC_binding_2; pfam14525 935296003111 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296003112 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 935296003113 NAD(P) binding site [chemical binding]; other site 935296003114 catalytic residues [active] 935296003115 2-enoyl thioester reductase-like; Region: ETR_like; cd05282 935296003116 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 935296003117 NADP binding site [chemical binding]; other site 935296003118 dimer interface [polypeptide binding]; other site 935296003119 tyramine oxidase; Provisional; Region: tynA; PRK14696 935296003120 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 935296003121 Copper amine oxidase, N2 domain; Region: Cu_amine_oxidN2; pfam02727 935296003122 Copper amine oxidase, N3 domain; Region: Cu_amine_oxidN3; pfam02728 935296003123 Copper amine oxidase, enzyme domain; Region: Cu_amine_oxid; pfam01179 935296003124 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 935296003125 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 935296003126 substrate binding site [chemical binding]; other site 935296003127 dimer interface [polypeptide binding]; other site 935296003128 NADP binding site [chemical binding]; other site 935296003129 catalytic residues [active] 935296003130 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 935296003131 substrate binding site [chemical binding]; other site 935296003132 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 935296003133 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 935296003134 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 935296003135 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 935296003136 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 935296003137 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 935296003138 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 935296003139 FAD binding pocket [chemical binding]; other site 935296003140 FAD binding motif [chemical binding]; other site 935296003141 phosphate binding motif [ion binding]; other site 935296003142 beta-alpha-beta structure motif; other site 935296003143 NAD(p) ribose binding residues [chemical binding]; other site 935296003144 NAD binding pocket [chemical binding]; other site 935296003145 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 935296003146 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 935296003147 catalytic loop [active] 935296003148 iron binding site [ion binding]; other site 935296003149 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 935296003150 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 935296003151 substrate binding site [chemical binding]; other site 935296003152 oxyanion hole (OAH) forming residues; other site 935296003153 trimer interface [polypeptide binding]; other site 935296003154 enoyl-CoA hydratase; Provisional; Region: PRK08140 935296003155 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 935296003156 substrate binding site [chemical binding]; other site 935296003157 oxyanion hole (OAH) forming residues; other site 935296003158 trimer interface [polypeptide binding]; other site 935296003159 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 935296003160 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 935296003161 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 935296003162 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 935296003163 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 935296003164 CoenzymeA binding site [chemical binding]; other site 935296003165 subunit interaction site [polypeptide binding]; other site 935296003166 PHB binding site; other site 935296003167 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 935296003168 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 935296003169 dimer interface [polypeptide binding]; other site 935296003170 active site 935296003171 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 935296003172 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 935296003173 active site 935296003174 AMP binding site [chemical binding]; other site 935296003175 homodimer interface [polypeptide binding]; other site 935296003176 acyl-activating enzyme (AAE) consensus motif; other site 935296003177 CoA binding site [chemical binding]; other site 935296003178 PaaX-like protein; Region: PaaX; pfam07848 935296003179 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 935296003180 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 935296003181 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 935296003182 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 935296003183 putative trimer interface [polypeptide binding]; other site 935296003184 putative metal binding site [ion binding]; other site 935296003185 Uncharacterized conserved protein [Function unknown]; Region: COG3791 935296003186 azoreductase; Reviewed; Region: PRK00170 935296003187 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 935296003188 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 935296003189 ATP binding site [chemical binding]; other site 935296003190 putative Mg++ binding site [ion binding]; other site 935296003191 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 935296003192 nucleotide binding region [chemical binding]; other site 935296003193 ATP-binding site [chemical binding]; other site 935296003194 Helicase associated domain (HA2); Region: HA2; pfam04408 935296003195 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 935296003196 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 935296003197 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 935296003198 S-adenosylmethionine binding site [chemical binding]; other site 935296003199 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 935296003200 Outer membrane efflux protein; Region: OEP; pfam02321 935296003201 Outer membrane efflux protein; Region: OEP; pfam02321 935296003202 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 935296003203 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 935296003204 HlyD family secretion protein; Region: HlyD_3; pfam13437 935296003205 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 935296003206 putative substrate translocation pore; other site 935296003207 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 935296003208 Transcriptional regulators [Transcription]; Region: MarR; COG1846 935296003209 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; cl17220 935296003210 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 935296003211 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 935296003212 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 935296003213 NAD(P) binding site [chemical binding]; other site 935296003214 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 935296003215 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 935296003216 inhibitor-cofactor binding pocket; inhibition site 935296003217 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296003218 catalytic residue [active] 935296003219 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 935296003220 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 935296003221 NAD(P) binding site [chemical binding]; other site 935296003222 catalytic residues [active] 935296003223 succinylarginine dihydrolase; Provisional; Region: PRK13281 935296003224 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 935296003225 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 935296003226 putative active site [active] 935296003227 Zn binding site [ion binding]; other site 935296003228 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 935296003229 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 935296003230 putative active site [active] 935296003231 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 935296003232 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 935296003233 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 935296003234 CAAX protease self-immunity; Region: Abi; pfam02517 935296003235 HlyD family secretion protein; Region: HlyD; pfam00529 935296003236 HlyD family secretion protein; Region: HlyD_3; pfam13437 935296003237 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 935296003238 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 935296003239 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 935296003240 Walker A/P-loop; other site 935296003241 ATP binding site [chemical binding]; other site 935296003242 Q-loop/lid; other site 935296003243 ABC transporter signature motif; other site 935296003244 Walker B; other site 935296003245 D-loop; other site 935296003246 H-loop/switch region; other site 935296003247 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 935296003248 putative catalytic site [active] 935296003249 putative metal binding site [ion binding]; other site 935296003250 putative phosphate binding site [ion binding]; other site 935296003251 cytochrome b561; Provisional; Region: PRK11513 935296003252 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 935296003253 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 935296003254 putative substrate translocation pore; other site 935296003255 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 935296003256 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296003257 Coenzyme A binding pocket [chemical binding]; other site 935296003258 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 935296003259 putative metal binding site [ion binding]; other site 935296003260 putative homodimer interface [polypeptide binding]; other site 935296003261 putative homotetramer interface [polypeptide binding]; other site 935296003262 putative homodimer-homodimer interface [polypeptide binding]; other site 935296003263 putative allosteric switch controlling residues; other site 935296003264 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 935296003265 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 935296003266 substrate binding site [chemical binding]; other site 935296003267 catalytic Zn binding site [ion binding]; other site 935296003268 NAD binding site [chemical binding]; other site 935296003269 structural Zn binding site [ion binding]; other site 935296003270 dimer interface [polypeptide binding]; other site 935296003271 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 935296003272 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 935296003273 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 935296003274 Trp docking motif [polypeptide binding]; other site 935296003275 putative active site [active] 935296003276 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 935296003277 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296003278 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 935296003279 dimerization interface [polypeptide binding]; other site 935296003280 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 935296003281 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 935296003282 heterodimer interface [polypeptide binding]; other site 935296003283 active site 935296003284 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 935296003285 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 935296003286 active site 935296003287 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 935296003288 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 935296003289 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 935296003290 substrate binding pocket [chemical binding]; other site 935296003291 catalytic triad [active] 935296003292 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 935296003293 catalytic triad [active] 935296003294 dimer interface [polypeptide binding]; other site 935296003295 conserved cis-peptide bond; other site 935296003296 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 935296003297 methionine aminotransferase; Validated; Region: PRK09082 935296003298 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 935296003299 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296003300 homodimer interface [polypeptide binding]; other site 935296003301 catalytic residue [active] 935296003302 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 935296003303 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 935296003304 substrate binding pocket [chemical binding]; other site 935296003305 membrane-bound complex binding site; other site 935296003306 hinge residues; other site 935296003307 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 935296003308 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 935296003309 catalytic Zn binding site [ion binding]; other site 935296003310 NAD binding site [chemical binding]; other site 935296003311 structural Zn binding site [ion binding]; other site 935296003312 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 935296003313 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 935296003314 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296003315 Coenzyme A binding pocket [chemical binding]; other site 935296003316 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 935296003317 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 935296003318 putative trimer interface [polypeptide binding]; other site 935296003319 putative CoA binding site [chemical binding]; other site 935296003320 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 935296003321 putative trimer interface [polypeptide binding]; other site 935296003322 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 935296003323 putative trimer interface [polypeptide binding]; other site 935296003324 putative CoA binding site [chemical binding]; other site 935296003325 putative CoA binding site [chemical binding]; other site 935296003326 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 935296003327 gating phenylalanine in ion channel; other site 935296003328 tellurite resistance protein TehB; Provisional; Region: PRK11207 935296003329 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 935296003330 S-adenosylmethionine binding site [chemical binding]; other site 935296003331 peptidase T-like protein; Region: PepT-like; TIGR01883 935296003332 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 935296003333 metal binding site [ion binding]; metal-binding site 935296003334 dimer interface [polypeptide binding]; other site 935296003335 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 935296003336 antimicrobial peptide ABC transporter periplasmic binding protein SapA; Provisional; Region: PRK15109 935296003337 peptide binding site [polypeptide binding]; other site 935296003338 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 935296003339 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 935296003340 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 935296003341 EamA-like transporter family; Region: EamA; pfam00892 935296003342 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296003343 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 935296003344 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296003345 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 935296003346 benzoate transporter; Region: benE; TIGR00843 935296003347 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 935296003348 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 935296003349 non-specific DNA binding site [nucleotide binding]; other site 935296003350 salt bridge; other site 935296003351 sequence-specific DNA binding site [nucleotide binding]; other site 935296003352 Cupin domain; Region: Cupin_2; pfam07883 935296003353 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 935296003354 putative protease; Provisional; Region: PRK15452 935296003355 Collagenase; Region: DUF3656; pfam12392 935296003356 Protein of unknown function (DUF2554); Region: DUF2554; pfam10829 935296003357 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 935296003358 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 935296003359 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 935296003360 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 935296003361 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 935296003362 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935296003363 DNA-binding site [nucleotide binding]; DNA binding site 935296003364 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 935296003365 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296003366 homodimer interface [polypeptide binding]; other site 935296003367 catalytic residue [active] 935296003368 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 935296003369 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 935296003370 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296003371 Walker A/P-loop; other site 935296003372 ATP binding site [chemical binding]; other site 935296003373 Q-loop/lid; other site 935296003374 ABC transporter signature motif; other site 935296003375 Walker B; other site 935296003376 D-loop; other site 935296003377 H-loop/switch region; other site 935296003378 TOBE domain; Region: TOBE_2; pfam08402 935296003379 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 935296003380 dimer interface [polypeptide binding]; other site 935296003381 conserved gate region; other site 935296003382 putative PBP binding loops; other site 935296003383 ABC-ATPase subunit interface; other site 935296003384 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 935296003385 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 935296003386 dimer interface [polypeptide binding]; other site 935296003387 conserved gate region; other site 935296003388 putative PBP binding loops; other site 935296003389 ABC-ATPase subunit interface; other site 935296003390 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 935296003391 tetrameric interface [polypeptide binding]; other site 935296003392 NAD binding site [chemical binding]; other site 935296003393 catalytic residues [active] 935296003394 substrate binding site [chemical binding]; other site 935296003395 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 935296003396 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 935296003397 Putative lysophospholipase; Region: Hydrolase_4; cl19140 935296003398 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 935296003399 NAD(P) binding site [chemical binding]; other site 935296003400 catalytic residues [active] 935296003401 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 935296003402 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 935296003403 peptide binding site [polypeptide binding]; other site 935296003404 Protein of unknown function (DUF2526); Region: DUF2526; pfam10735 935296003405 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 935296003406 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 935296003407 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296003408 Coenzyme A binding pocket [chemical binding]; other site 935296003409 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 935296003410 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 935296003411 non-specific DNA binding site [nucleotide binding]; other site 935296003412 salt bridge; other site 935296003413 sequence-specific DNA binding site [nucleotide binding]; other site 935296003414 Cupin domain; Region: Cupin_2; cl17218 935296003415 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 935296003416 Prostaglandin dehydrogenases; Region: PGDH; cd05288 935296003417 NAD(P) binding site [chemical binding]; other site 935296003418 substrate binding site [chemical binding]; other site 935296003419 dimer interface [polypeptide binding]; other site 935296003420 hypothetical protein; Provisional; Region: PRK09981 935296003421 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 935296003422 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 935296003423 N-terminal plug; other site 935296003424 ligand-binding site [chemical binding]; other site 935296003425 Uncharacterized conserved protein [Function unknown]; Region: COG3391 935296003426 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 935296003427 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 935296003428 L-asparagine permease; Provisional; Region: PRK15049 935296003429 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 935296003430 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296003431 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296003432 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 935296003433 putative effector binding pocket; other site 935296003434 putative dimerization interface [polypeptide binding]; other site 935296003435 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 935296003436 AAA domain; Region: AAA_17; pfam13207 935296003437 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl19096 935296003438 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 935296003439 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 935296003440 metal binding site [ion binding]; metal-binding site 935296003441 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 935296003442 active site 935296003443 non-prolyl cis peptide bond; other site 935296003444 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 935296003445 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 935296003446 substrate binding pocket [chemical binding]; other site 935296003447 membrane-bound complex binding site; other site 935296003448 hinge residues; other site 935296003449 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 935296003450 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296003451 Coenzyme A binding pocket [chemical binding]; other site 935296003452 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 935296003453 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 935296003454 dimer interface [polypeptide binding]; other site 935296003455 conserved gate region; other site 935296003456 putative PBP binding loops; other site 935296003457 ABC-ATPase subunit interface; other site 935296003458 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 935296003459 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 935296003460 Walker A/P-loop; other site 935296003461 ATP binding site [chemical binding]; other site 935296003462 Q-loop/lid; other site 935296003463 ABC transporter signature motif; other site 935296003464 Walker B; other site 935296003465 D-loop; other site 935296003466 H-loop/switch region; other site 935296003467 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 935296003468 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 935296003469 substrate binding pocket [chemical binding]; other site 935296003470 membrane-bound complex binding site; other site 935296003471 hinge residues; other site 935296003472 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 935296003473 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 935296003474 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 935296003475 C-terminal domain interface [polypeptide binding]; other site 935296003476 GSH binding site (G-site) [chemical binding]; other site 935296003477 dimer interface [polypeptide binding]; other site 935296003478 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 935296003479 N-terminal domain interface [polypeptide binding]; other site 935296003480 dimer interface [polypeptide binding]; other site 935296003481 substrate binding pocket (H-site) [chemical binding]; other site 935296003482 4-oxalocrotonate tautomerase; Provisional; Region: PRK01271 935296003483 active site 1 [active] 935296003484 dimer interface [polypeptide binding]; other site 935296003485 hexamer interface [polypeptide binding]; other site 935296003486 active site 2 [active] 935296003487 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 935296003488 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 935296003489 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 935296003490 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 935296003491 DNA binding residues [nucleotide binding] 935296003492 dimerization interface [polypeptide binding]; other site 935296003493 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 935296003494 N-acetyltransferase; Region: Acetyltransf_2; cl00949 935296003495 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 935296003496 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 935296003497 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 935296003498 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 935296003499 Respiratory nitrate reductase beta C-terminal; Region: Nitr_red_bet_C; pfam14711 935296003500 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 935296003501 Respiratory nitrate reductase alpha N-terminal; Region: Nitr_red_alph_N; pfam14710 935296003502 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 935296003503 [4Fe-4S] binding site [ion binding]; other site 935296003504 molybdopterin cofactor binding site [chemical binding]; other site 935296003505 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 935296003506 molybdopterin cofactor binding site; other site 935296003507 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 935296003508 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 935296003509 TetR family transcriptional regulator; Provisional; Region: PRK14996 935296003510 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935296003511 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 935296003512 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 935296003513 putative substrate translocation pore; other site 935296003514 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 935296003515 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 935296003516 Bacterial transcriptional regulator; Region: IclR; pfam01614 935296003517 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 935296003518 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 935296003519 octamer interface [polypeptide binding]; other site 935296003520 active site 935296003521 Muconolactone delta-isomerase; Region: MIase; cl01992 935296003522 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 935296003523 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 935296003524 active site 935296003525 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 935296003526 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 935296003527 iron-sulfur cluster [ion binding]; other site 935296003528 [2Fe-2S] cluster binding site [ion binding]; other site 935296003529 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 935296003530 putative alpha subunit interface [polypeptide binding]; other site 935296003531 putative active site [active] 935296003532 putative substrate binding site [chemical binding]; other site 935296003533 Fe binding site [ion binding]; other site 935296003534 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 935296003535 inter-subunit interface; other site 935296003536 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 935296003537 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 935296003538 catalytic loop [active] 935296003539 iron binding site [ion binding]; other site 935296003540 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 935296003541 FAD binding pocket [chemical binding]; other site 935296003542 FAD binding motif [chemical binding]; other site 935296003543 phosphate binding motif [ion binding]; other site 935296003544 beta-alpha-beta structure motif; other site 935296003545 NAD binding pocket [chemical binding]; other site 935296003546 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 935296003547 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 935296003548 putative NAD(P) binding site [chemical binding]; other site 935296003549 active site 935296003550 aromatic amino acid exporter; Provisional; Region: PRK11689 935296003551 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 935296003552 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 935296003553 molybdopterin cofactor binding site; other site 935296003554 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 935296003555 molybdopterin cofactor binding site; other site 935296003556 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 935296003557 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 935296003558 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 935296003559 formate dehydrogenase-N subunit gamma; Provisional; Region: PRK10179 935296003560 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 935296003561 putative monooxygenase; Provisional; Region: PRK11118 935296003562 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; cl19132 935296003563 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 935296003564 dimerization interface [polypeptide binding]; other site 935296003565 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 935296003566 ligand binding site [chemical binding]; other site 935296003567 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 935296003568 TM-ABC transporter signature motif; other site 935296003569 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 935296003570 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 935296003571 TM-ABC transporter signature motif; other site 935296003572 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 935296003573 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 935296003574 Walker A/P-loop; other site 935296003575 ATP binding site [chemical binding]; other site 935296003576 Q-loop/lid; other site 935296003577 ABC transporter signature motif; other site 935296003578 Walker B; other site 935296003579 D-loop; other site 935296003580 H-loop/switch region; other site 935296003581 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 935296003582 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 935296003583 Walker A/P-loop; other site 935296003584 ATP binding site [chemical binding]; other site 935296003585 Q-loop/lid; other site 935296003586 ABC transporter signature motif; other site 935296003587 Walker B; other site 935296003588 D-loop; other site 935296003589 H-loop/switch region; other site 935296003590 MFS transport protein AraJ; Provisional; Region: PRK10091 935296003591 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 935296003592 putative substrate translocation pore; other site 935296003593 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 935296003594 alkylhydroperoxidase domain protein, Avi_7169 family; Region: perox_Avi_7169; TIGR04030 935296003595 Uncharacterized conserved protein [Function unknown]; Region: COG2128 935296003596 putative FMN-dependent luciferase-like monooxygenase, KPN_01858 family; Region: LLM_KPN_01858; TIGR04027 935296003597 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 935296003598 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935296003599 Walker A/P-loop; other site 935296003600 ATP binding site [chemical binding]; other site 935296003601 Q-loop/lid; other site 935296003602 ABC transporter signature motif; other site 935296003603 Walker B; other site 935296003604 D-loop; other site 935296003605 H-loop/switch region; other site 935296003606 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935296003607 Walker A/P-loop; other site 935296003608 ATP binding site [chemical binding]; other site 935296003609 Q-loop/lid; other site 935296003610 ABC transporter signature motif; other site 935296003611 Walker B; other site 935296003612 D-loop; other site 935296003613 H-loop/switch region; other site 935296003614 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 935296003615 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 935296003616 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 935296003617 dimer interface [polypeptide binding]; other site 935296003618 conserved gate region; other site 935296003619 putative PBP binding loops; other site 935296003620 ABC-ATPase subunit interface; other site 935296003621 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 935296003622 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 935296003623 dimer interface [polypeptide binding]; other site 935296003624 conserved gate region; other site 935296003625 putative PBP binding loops; other site 935296003626 ABC-ATPase subunit interface; other site 935296003627 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 935296003628 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 935296003629 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 935296003630 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 935296003631 NAD binding site [chemical binding]; other site 935296003632 substrate binding site [chemical binding]; other site 935296003633 catalytic Zn binding site [ion binding]; other site 935296003634 tetramer interface [polypeptide binding]; other site 935296003635 structural Zn binding site [ion binding]; other site 935296003636 Transcriptional regulators [Transcription]; Region: MarR; COG1846 935296003637 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; cl17220 935296003638 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296003639 Coenzyme A binding pocket [chemical binding]; other site 935296003640 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 935296003641 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935296003642 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935296003643 RbsD / FucU transport protein family; Region: RbsD_FucU; pfam05025 935296003644 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 935296003645 classical (c) SDRs; Region: SDR_c; cd05233 935296003646 NAD(P) binding site [chemical binding]; other site 935296003647 active site 935296003648 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 935296003649 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 935296003650 putative substrate translocation pore; other site 935296003651 Transcriptional regulators [Transcription]; Region: PurR; COG1609 935296003652 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 935296003653 DNA binding site [nucleotide binding] 935296003654 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 935296003655 malate dehydrogenase; Provisional; Region: PRK13529 935296003656 Malic enzyme, N-terminal domain; Region: malic; pfam00390 935296003657 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 935296003658 NAD(P) binding site [chemical binding]; other site 935296003659 30S ribosomal subunit S22; Reviewed; Region: rpsV; PRK10057 935296003660 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 935296003661 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296003662 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296003663 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 935296003664 putative effector binding pocket; other site 935296003665 dimerization interface [polypeptide binding]; other site 935296003666 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 935296003667 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 935296003668 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 935296003669 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 935296003670 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 935296003671 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 935296003672 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 935296003673 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 935296003674 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 935296003675 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 935296003676 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 935296003677 putative molybdopterin cofactor binding site [chemical binding]; other site 935296003678 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 935296003679 putative molybdopterin cofactor binding site; other site 935296003680 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296003681 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296003682 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 935296003683 dimerization interface [polypeptide binding]; other site 935296003684 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296003685 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296003686 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 935296003687 putative effector binding pocket; other site 935296003688 dimerization interface [polypeptide binding]; other site 935296003689 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 935296003690 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935296003691 putative substrate translocation pore; other site 935296003692 benzoate transport; Region: 2A0115; TIGR00895 935296003693 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 935296003694 putative substrate translocation pore; other site 935296003695 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 935296003696 magnesium-transporting ATPase; Provisional; Region: PRK15122 935296003697 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 935296003698 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 935296003699 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 935296003700 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 935296003701 motif II; other site 935296003702 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 935296003703 Arginase-like amidino hydrolase family; Region: Arginase-like_1; cd09999 935296003704 active site 935296003705 Mn binding site [ion binding]; other site 935296003706 TetR family transcriptional regulator; Provisional; Region: PRK14996 935296003707 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935296003708 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 935296003709 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; cl18944 935296003710 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 935296003711 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 935296003712 heme binding site [chemical binding]; other site 935296003713 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 935296003714 heme binding site [chemical binding]; other site 935296003715 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296003716 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296003717 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 935296003718 putative effector binding pocket; other site 935296003719 dimerization interface [polypeptide binding]; other site 935296003720 Protein of unknown function, DUF606; Region: DUF606; pfam04657 935296003721 Protein of unknown function, DUF606; Region: DUF606; pfam04657 935296003722 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 935296003723 penicillin-binding protein 2; Provisional; Region: PRK10795 935296003724 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 935296003725 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 935296003726 coenzyme PQQ biosynthesis probable peptidase PqqF; Region: PQQ_syn_pqqF; TIGR02110 935296003727 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 935296003728 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 935296003729 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 935296003730 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 935296003731 FeS/SAM binding site; other site 935296003732 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 935296003733 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 935296003734 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 935296003735 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 935296003736 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 935296003737 active site 935296003738 dimer interface [polypeptide binding]; other site 935296003739 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 935296003740 Putative lysophospholipase; Region: Hydrolase_4; cl19140 935296003741 osmolarity response regulator; Provisional; Region: ompR; PRK09468 935296003742 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 935296003743 active site 935296003744 phosphorylation site [posttranslational modification] 935296003745 intermolecular recognition site; other site 935296003746 dimerization interface [polypeptide binding]; other site 935296003747 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 935296003748 DNA binding site [nucleotide binding] 935296003749 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 935296003750 HAMP domain; Region: HAMP; pfam00672 935296003751 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 935296003752 dimer interface [polypeptide binding]; other site 935296003753 phosphorylation site [posttranslational modification] 935296003754 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 935296003755 ATP binding site [chemical binding]; other site 935296003756 Mg2+ binding site [ion binding]; other site 935296003757 G-X-G motif; other site 935296003758 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 935296003759 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 935296003760 catalytic residues [active] 935296003761 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 935296003762 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296003763 catalytic residue [active] 935296003764 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 935296003765 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 935296003766 inhibitor-cofactor binding pocket; inhibition site 935296003767 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296003768 catalytic residue [active] 935296003769 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 935296003770 NMT1/THI5 like; Region: NMT1; pfam09084 935296003771 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 935296003772 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 935296003773 dimer interface [polypeptide binding]; other site 935296003774 conserved gate region; other site 935296003775 putative PBP binding loops; other site 935296003776 ABC-ATPase subunit interface; other site 935296003777 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 935296003778 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296003779 Walker A/P-loop; other site 935296003780 ATP binding site [chemical binding]; other site 935296003781 Q-loop/lid; other site 935296003782 ABC transporter signature motif; other site 935296003783 Walker B; other site 935296003784 D-loop; other site 935296003785 H-loop/switch region; other site 935296003786 Putative transcription activator [Transcription]; Region: TenA; COG0819 935296003787 Surface antigen; Region: Bac_surface_Ag; pfam01103 935296003788 Protein of unknown function (DUF4056); Region: DUF4056; pfam13265 935296003789 High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I...; Region: HMG-box; cl00082 935296003790 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 935296003791 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 935296003792 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 935296003793 DNA binding residues [nucleotide binding] 935296003794 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296003795 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296003796 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 935296003797 putative effector binding pocket; other site 935296003798 putative dimerization interface [polypeptide binding]; other site 935296003799 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 935296003800 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 935296003801 FMN binding site [chemical binding]; other site 935296003802 substrate binding site [chemical binding]; other site 935296003803 putative catalytic residue [active] 935296003804 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 935296003805 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 935296003806 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 935296003807 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 935296003808 hypothetical protein; Provisional; Region: PRK07033 935296003809 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 935296003810 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 935296003811 ligand binding site [chemical binding]; other site 935296003812 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 935296003813 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 935296003814 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 935296003815 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 935296003816 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; pfam09867 935296003817 ImpA-related N-terminal; Region: ImpA-rel_N; cl19907 935296003818 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 935296003819 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 935296003820 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 935296003821 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 935296003822 Protein of unknown function (DUF796); Region: DUF796; pfam05638 935296003823 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 935296003824 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; cd00060 935296003825 phosphopeptide binding site; other site 935296003826 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 935296003827 active site 935296003828 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 935296003829 ImpE protein; Region: ImpE; pfam07024 935296003830 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 935296003831 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 935296003832 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 935296003833 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 935296003834 Clp amino terminal domain; Region: Clp_N; pfam02861 935296003835 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 935296003836 Walker A motif; other site 935296003837 ATP binding site [chemical binding]; other site 935296003838 Walker B motif; other site 935296003839 arginine finger; other site 935296003840 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 935296003841 Walker A motif; other site 935296003842 ATP binding site [chemical binding]; other site 935296003843 Walker B motif; other site 935296003844 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 935296003845 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 935296003846 Catalytic domain of Protein Kinases; Region: PKc; cd00180 935296003847 active site 935296003848 ATP binding site [chemical binding]; other site 935296003849 substrate binding site [chemical binding]; other site 935296003850 activation loop (A-loop); other site 935296003851 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 935296003852 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 935296003853 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 935296003854 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 935296003855 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 935296003856 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 935296003857 Growth arrest and DNA-damage-inducible proteins-interacting protein 1; Region: CR6_interact; pfam10147 935296003858 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 935296003859 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 935296003860 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 935296003861 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 935296003862 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 935296003863 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 935296003864 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 935296003865 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 935296003866 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 935296003867 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 935296003868 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 935296003869 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 935296003870 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 935296003871 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 935296003872 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 935296003873 C-lysozyme inhibitor; Provisional; Region: PRK09993 935296003874 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 935296003875 Mechanosensitive ion channel; Region: MS_channel; pfam00924 935296003876 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296003877 Coenzyme A binding pocket [chemical binding]; other site 935296003878 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 935296003879 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 935296003880 FMN-binding pocket [chemical binding]; other site 935296003881 flavin binding motif; other site 935296003882 phosphate binding motif [ion binding]; other site 935296003883 beta-alpha-beta structure motif; other site 935296003884 NAD binding pocket [chemical binding]; other site 935296003885 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 935296003886 catalytic loop [active] 935296003887 iron binding site [ion binding]; other site 935296003888 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 935296003889 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 935296003890 [2Fe-2S] cluster binding site [ion binding]; other site 935296003891 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 935296003892 hydrophobic ligand binding site; other site 935296003893 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296003894 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296003895 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 935296003896 dimerization interface [polypeptide binding]; other site 935296003897 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 935296003898 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 935296003899 Sulfate transporter family; Region: Sulfate_transp; cl19250 935296003900 xanthine permease; Region: pbuX; TIGR03173 935296003901 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 935296003902 Transthyretin_like. This domain is present in the transthyretin-like protein (TLP) family which includes transthyretin (TTR) and a transthyretin-related protein called 5-hydroxyisourate hydrolase (HIUase). TTR and HIUase are homotetrameric proteins...; Region: Transthyretin_like; cl17222 935296003903 active site 935296003904 homotetramer interface [polypeptide binding]; other site 935296003905 guanine deaminase; Provisional; Region: PRK09228 935296003906 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 935296003907 active site 935296003908 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 935296003909 Na binding site [ion binding]; other site 935296003910 putative substrate binding site [chemical binding]; other site 935296003911 Transcriptional regulators [Transcription]; Region: FadR; COG2186 935296003912 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935296003913 DNA-binding site [nucleotide binding]; DNA binding site 935296003914 FCD domain; Region: FCD; pfam07729 935296003915 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 935296003916 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 935296003917 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 935296003918 active site 935296003919 catalytic site [active] 935296003920 tetramer interface [polypeptide binding]; other site 935296003921 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 935296003922 amidase; Provisional; Region: PRK09201 935296003923 Protein of unknown function (DUF4089); Region: DUF4089; pfam13318 935296003924 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 935296003925 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 935296003926 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 935296003927 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 935296003928 putative active site [active] 935296003929 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 935296003930 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 935296003931 substrate binding pocket [chemical binding]; other site 935296003932 membrane-bound complex binding site; other site 935296003933 hinge residues; other site 935296003934 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 935296003935 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 935296003936 dimer interface [polypeptide binding]; other site 935296003937 conserved gate region; other site 935296003938 putative PBP binding loops; other site 935296003939 ABC-ATPase subunit interface; other site 935296003940 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 935296003941 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 935296003942 dimer interface [polypeptide binding]; other site 935296003943 conserved gate region; other site 935296003944 putative PBP binding loops; other site 935296003945 ABC-ATPase subunit interface; other site 935296003946 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 935296003947 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 935296003948 Walker A/P-loop; other site 935296003949 ATP binding site [chemical binding]; other site 935296003950 Q-loop/lid; other site 935296003951 ABC transporter signature motif; other site 935296003952 Walker B; other site 935296003953 D-loop; other site 935296003954 H-loop/switch region; other site 935296003955 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 935296003956 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 935296003957 catalytic residue [active] 935296003958 allantoate amidohydrolase; Reviewed; Region: PRK09290 935296003959 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 935296003960 active site 935296003961 metal binding site [ion binding]; metal-binding site 935296003962 dimer interface [polypeptide binding]; other site 935296003963 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 935296003964 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935296003965 putative substrate translocation pore; other site 935296003966 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296003967 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296003968 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_1; cd08460 935296003969 putative substrate binding pocket [chemical binding]; other site 935296003970 putative dimerization interface [polypeptide binding]; other site 935296003971 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 935296003972 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 935296003973 CblD like pilus biogenesis initiator; Region: CblD; cl06460 935296003974 fimbrial outer membrane usher protein TcfC; Provisional; Region: PRK15310 935296003975 CS1 type fimbrial major subunit; Region: Fimbrial_CS1; cl04524 935296003976 putative fimbrial protein TcfA; Provisional; Region: PRK15308 935296003977 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 935296003978 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 935296003979 DNA binding site [nucleotide binding] 935296003980 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 935296003981 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 935296003982 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296003983 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 935296003984 dimerization interface [polypeptide binding]; other site 935296003985 substrate binding pocket [chemical binding]; other site 935296003986 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 935296003987 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 935296003988 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 935296003989 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 935296003990 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 935296003991 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 935296003992 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 935296003993 active site 935296003994 catalytic tetrad [active] 935296003995 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 935296003996 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 935296003997 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 935296003998 active site 935296003999 catalytic tetrad [active] 935296004000 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 935296004001 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 935296004002 potential catalytic triad [active] 935296004003 conserved cys residue [active] 935296004004 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296004005 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296004006 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 935296004007 dimerization interface [polypeptide binding]; other site 935296004008 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296004009 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296004010 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 935296004011 putative effector binding pocket; other site 935296004012 putative dimerization interface [polypeptide binding]; other site 935296004013 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 935296004014 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 935296004015 active site 935296004016 catalytic tetrad [active] 935296004017 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 935296004018 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 935296004019 active site 935296004020 catalytic tetrad [active] 935296004021 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 935296004022 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 935296004023 active site 935296004024 catalytic tetrad [active] 935296004025 Transcriptional regulators [Transcription]; Region: PurR; COG1609 935296004026 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 935296004027 DNA binding site [nucleotide binding] 935296004028 domain linker motif; other site 935296004029 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 935296004030 ligand binding site [chemical binding]; other site 935296004031 dimerization interface [polypeptide binding]; other site 935296004032 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 935296004033 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 935296004034 nucleotide binding site [chemical binding]; other site 935296004035 butyrate kinase; Region: butyr_kinase; TIGR02707 935296004036 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 935296004037 methionine cluster; other site 935296004038 active site 935296004039 phosphorylation site [posttranslational modification] 935296004040 metal binding site [ion binding]; metal-binding site 935296004041 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 935296004042 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 935296004043 active site 935296004044 P-loop; other site 935296004045 phosphorylation site [posttranslational modification] 935296004046 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 935296004047 maltoporin; Provisional; Region: lamB; PRK09360 935296004048 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 935296004049 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 935296004050 Sugar-binding cellulase-like; Region: Cellulase-like; cl19200 935296004051 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 935296004052 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 935296004053 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 935296004054 outer membrane porin, OprD family; Region: OprD; pfam03573 935296004055 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 935296004056 catalytic core [active] 935296004057 Survival protein SurE; Region: SurE; pfam01975 935296004058 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 935296004059 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 935296004060 active site 935296004061 phosphorylation site [posttranslational modification] 935296004062 intermolecular recognition site; other site 935296004063 dimerization interface [polypeptide binding]; other site 935296004064 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 935296004065 DNA binding residues [nucleotide binding] 935296004066 dimerization interface [polypeptide binding]; other site 935296004067 Domain of unknown function (DUF336); Region: DUF336; cl01249 935296004068 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 935296004069 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296004070 Coenzyme A binding pocket [chemical binding]; other site 935296004071 putative sialic acid transporter; Region: 2A0112; TIGR00891 935296004072 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 935296004073 putative substrate translocation pore; other site 935296004074 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 935296004075 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 935296004076 hypothetical protein; Provisional; Region: PRK09897 935296004077 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 935296004078 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 935296004079 active site 935296004080 FMN binding site [chemical binding]; other site 935296004081 substrate binding site [chemical binding]; other site 935296004082 homotetramer interface [polypeptide binding]; other site 935296004083 catalytic residue [active] 935296004084 Uncharacterized homolog of Blt101 [Function unknown]; Region: COG0401 935296004085 D-mannonate dehydratase (UxuA); Region: UxuA; pfam03786 935296004086 mannonate dehydratase; Provisional; Region: PRK03906 935296004087 fructuronate transporter; Provisional; Region: PRK10034; cl15264 935296004088 GntP family permease; Region: GntP_permease; pfam02447 935296004089 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 935296004090 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 935296004091 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 935296004092 dimer interface [polypeptide binding]; other site 935296004093 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296004094 catalytic residue [active] 935296004095 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 935296004096 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 935296004097 homodimer interface [polypeptide binding]; other site 935296004098 substrate-cofactor binding pocket; other site 935296004099 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296004100 catalytic residue [active] 935296004101 hypothetical protein; Provisional; Region: PRK10053 935296004102 Predicted membrane protein [Function unknown]; Region: COG2323 935296004103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935296004104 short chain dehydrogenase; Provisional; Region: PRK07109 935296004105 NAD(P) binding site [chemical binding]; other site 935296004106 active site 935296004107 trehalose synthase; Region: treS_nterm; TIGR02456 935296004108 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 935296004109 active site 935296004110 catalytic site [active] 935296004111 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 935296004112 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 935296004113 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 935296004114 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 935296004115 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3685 935296004116 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 935296004117 dimerization interface [polypeptide binding]; other site 935296004118 metal binding site [ion binding]; metal-binding site 935296004119 General stress protein [General function prediction only]; Region: GsiB; COG3729 935296004120 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935296004121 oxidoreductase; Provisional; Region: PRK07985 935296004122 NAD(P) binding site [chemical binding]; other site 935296004123 active site 935296004124 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl19096 935296004125 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR5; cd08271 935296004126 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 935296004127 putative NAD(P) binding site [chemical binding]; other site 935296004128 substrate binding site [chemical binding]; other site 935296004129 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 935296004130 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 935296004131 putative substrate translocation pore; other site 935296004132 Cupin; Region: Cupin_6; pfam12852 935296004133 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 935296004134 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296004135 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296004136 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 935296004137 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 935296004138 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 935296004139 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 935296004140 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 935296004141 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 935296004142 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 935296004143 Walker A/P-loop; other site 935296004144 ATP binding site [chemical binding]; other site 935296004145 Q-loop/lid; other site 935296004146 ABC transporter signature motif; other site 935296004147 Walker B; other site 935296004148 D-loop; other site 935296004149 H-loop/switch region; other site 935296004150 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 935296004151 dimer interface [polypeptide binding]; other site 935296004152 conserved gate region; other site 935296004153 putative PBP binding loops; other site 935296004154 ABC-ATPase subunit interface; other site 935296004155 Nitronate monooxygenase; Region: NMO; pfam03060 935296004156 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 935296004157 FMN binding site [chemical binding]; other site 935296004158 substrate binding site [chemical binding]; other site 935296004159 putative catalytic residue [active] 935296004160 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 935296004161 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 935296004162 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935296004163 DNA-binding site [nucleotide binding]; DNA binding site 935296004164 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 935296004165 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296004166 homodimer interface [polypeptide binding]; other site 935296004167 catalytic residue [active] 935296004168 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 935296004169 EamA-like transporter family; Region: EamA; pfam00892 935296004170 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399; cl19827 935296004171 major facilitator superfamily transporter; Provisional; Region: PRK05122 935296004172 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 935296004173 putative substrate translocation pore; other site 935296004174 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 935296004175 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 935296004176 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 935296004177 S-adenosylmethionine binding site [chemical binding]; other site 935296004178 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 935296004179 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 935296004180 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 935296004181 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 935296004182 putative aldolase; Validated; Region: PRK08130 935296004183 intersubunit interface [polypeptide binding]; other site 935296004184 active site 935296004185 Zn2+ binding site [ion binding]; other site 935296004186 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 935296004187 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 935296004188 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 935296004189 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 935296004190 putative substrate translocation pore; other site 935296004191 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 935296004192 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 935296004193 putative NAD(P) binding site [chemical binding]; other site 935296004194 active site 935296004195 putative substrate binding site [chemical binding]; other site 935296004196 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 935296004197 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296004198 Coenzyme A binding pocket [chemical binding]; other site 935296004199 altronate oxidoreductase; Provisional; Region: PRK03643 935296004200 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 935296004201 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 935296004202 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 935296004203 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296004204 Coenzyme A binding pocket [chemical binding]; other site 935296004205 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 935296004206 metal binding site [ion binding]; metal-binding site 935296004207 active site 935296004208 I-site; other site 935296004209 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 935296004210 glutaminase; Provisional; Region: PRK00971 935296004211 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 935296004212 NAD(P) binding site [chemical binding]; other site 935296004213 catalytic residues [active] 935296004214 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296004215 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296004216 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 935296004217 putative dimerization interface [polypeptide binding]; other site 935296004218 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 935296004219 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 935296004220 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 935296004221 4-hydroxythreonine-4-phosphate dehydrogenase 2; Provisional; Region: pdxA; PRK03371 935296004222 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 935296004223 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 935296004224 active site 935296004225 NAD binding site [chemical binding]; other site 935296004226 metal binding site [ion binding]; metal-binding site 935296004227 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 935296004228 inhibitor site; inhibition site 935296004229 active site 935296004230 dimer interface [polypeptide binding]; other site 935296004231 catalytic residue [active] 935296004232 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 935296004233 Na binding site [ion binding]; other site 935296004234 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 935296004235 BNR repeat-like domain; Region: BNR_2; pfam13088 935296004236 Domain of unknown function (DUF386); Region: DUF386; cl01047 935296004237 short chain dehydrogenase; Provisional; Region: PRK07577 935296004238 classical (c) SDRs; Region: SDR_c; cd05233 935296004239 NAD(P) binding site [chemical binding]; other site 935296004240 active site 935296004241 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 935296004242 Diaminopimelate epimerase; Region: DAP_epimerase; cl19724 935296004243 putative arabinose transporter; Provisional; Region: PRK03545 935296004244 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 935296004245 putative substrate translocation pore; other site 935296004246 inner membrane protein; Provisional; Region: PRK10995 935296004247 DNA-binding transcriptional repressor MarR; Provisional; Region: PRK11512 935296004248 Transcriptional regulators [Transcription]; Region: MarR; COG1846 935296004249 DNA-binding transcriptional activator MarA; Provisional; Region: PRK11511 935296004250 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296004251 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296004252 MarB protein; Region: MarB; pfam13999 935296004253 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 935296004254 EamA-like transporter family; Region: EamA; pfam00892 935296004255 EamA-like transporter family; Region: EamA; pfam00892 935296004256 putative transporter; Provisional; Region: PRK10054 935296004257 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 935296004258 putative substrate translocation pore; other site 935296004259 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 935296004260 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 935296004261 non-specific DNA binding site [nucleotide binding]; other site 935296004262 salt bridge; other site 935296004263 sequence-specific DNA binding site [nucleotide binding]; other site 935296004264 2TM domain; Region: 2TM; pfam13239 935296004265 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 935296004266 substrate binding site [chemical binding]; other site 935296004267 THF binding site; other site 935296004268 zinc-binding site [ion binding]; other site 935296004269 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 935296004270 active site residue [active] 935296004271 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 935296004272 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 935296004273 conserved cys residue [active] 935296004274 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296004275 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296004276 GAF domain; Region: GAF; pfam01590 935296004277 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 935296004278 metal binding site [ion binding]; metal-binding site 935296004279 active site 935296004280 I-site; other site 935296004281 lac repressor; Reviewed; Region: lacI; PRK09526 935296004282 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 935296004283 DNA binding site [nucleotide binding] 935296004284 domain linker motif; other site 935296004285 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 935296004286 ligand binding site [chemical binding]; other site 935296004287 dimerization interface (open form) [polypeptide binding]; other site 935296004288 dimerization interface (closed form) [polypeptide binding]; other site 935296004289 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 935296004290 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 935296004291 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 935296004292 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 935296004293 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 935296004294 LacY proton/sugar symporter; Region: LacY_symp; pfam01306 935296004295 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 935296004296 putative substrate translocation pore; other site 935296004297 Predicted ATPase [General function prediction only]; Region: COG4637 935296004298 AAA domain; Region: AAA_23; pfam13476 935296004299 Walker A/P-loop; other site 935296004300 ATP binding site [chemical binding]; other site 935296004301 ABC transporter signature motif; other site 935296004302 AAA domain; Region: AAA_21; pfam13304 935296004303 Walker B; other site 935296004304 D-loop; other site 935296004305 H-loop/switch region; other site 935296004306 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 935296004307 Zn binding site [ion binding]; other site 935296004308 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 935296004309 malonic semialdehyde reductase; Provisional; Region: PRK10538 935296004310 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 935296004311 putative NAD(P) binding site [chemical binding]; other site 935296004312 homodimer interface [polypeptide binding]; other site 935296004313 homotetramer interface [polypeptide binding]; other site 935296004314 active site 935296004315 Transcriptional regulators [Transcription]; Region: GntR; COG1802 935296004316 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935296004317 DNA-binding site [nucleotide binding]; DNA binding site 935296004318 FCD domain; Region: FCD; pfam07729 935296004319 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 935296004320 Ligand Binding Site [chemical binding]; other site 935296004321 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 935296004322 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 935296004323 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 935296004324 metabolite-proton symporter; Region: 2A0106; TIGR00883 935296004325 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 935296004326 putative substrate translocation pore; other site 935296004327 putative oxidoreductase; Provisional; Region: PRK10083 935296004328 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 935296004329 putative NAD(P) binding site [chemical binding]; other site 935296004330 catalytic Zn binding site [ion binding]; other site 935296004331 structural Zn binding site [ion binding]; other site 935296004332 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 935296004333 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 935296004334 putative active site pocket [active] 935296004335 putative metal binding site [ion binding]; other site 935296004336 D-galactonate transporter; Region: 2A0114; TIGR00893 935296004337 Permeases of the major facilitator superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / Inorganic ion transport and metabolism / General function prediction only]; Region: ProP; COG0477 935296004338 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 935296004339 putative substrate translocation pore; other site 935296004340 hypothetical protein; Provisional; Region: PRK02237 935296004341 hypothetical protein; Provisional; Region: PRK13659 935296004342 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 935296004343 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296004344 Coenzyme A binding pocket [chemical binding]; other site 935296004345 lipoprotein; Reviewed; Region: PRK02939 935296004346 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 935296004347 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 935296004348 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 935296004349 putative [Fe4-S4] binding site [ion binding]; other site 935296004350 putative molybdopterin cofactor binding site [chemical binding]; other site 935296004351 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 935296004352 putative molybdopterin cofactor binding site; other site 935296004353 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 935296004354 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 935296004355 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 935296004356 twin-argninine leader-binding protein DmsD; Provisional; Region: PRK11621 935296004357 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 935296004358 Cl- selectivity filter; other site 935296004359 Cl- binding residues [ion binding]; other site 935296004360 pore gating glutamate residue; other site 935296004361 dimer interface [polypeptide binding]; other site 935296004362 putative dithiobiotin synthetase; Provisional; Region: PRK12374 935296004363 AAA domain; Region: AAA_26; pfam13500 935296004364 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 935296004365 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 935296004366 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 935296004367 nucleotide binding site [chemical binding]; other site 935296004368 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 935296004369 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296004370 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296004371 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 935296004372 dimerization interface [polypeptide binding]; other site 935296004373 substrate binding pocket [chemical binding]; other site 935296004374 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 935296004375 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 935296004376 putative substrate translocation pore; other site 935296004377 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 935296004378 active site 935296004379 Zn binding site [ion binding]; other site 935296004380 acid shock protein precursor; Provisional; Region: PRK03577 935296004381 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 935296004382 CHASE4 domain; Region: CHASE4; pfam05228 935296004383 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 935296004384 metal binding site [ion binding]; metal-binding site 935296004385 active site 935296004386 I-site; other site 935296004387 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 935296004388 multidrug efflux system protein MdtI; Provisional; Region: PRK10650 935296004389 multidrug efflux system protein MdtJ; Provisional; Region: PRK10452 935296004390 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; PRK12287 935296004391 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 935296004392 Coenzyme A transferase; Region: CoA_trans; cl17247 935296004393 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 935296004394 malonate decarboxylase acyl carrier protein; Region: malonate_delta; TIGR03130 935296004395 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 935296004396 Malonate decarboxylase gamma subunit (MdcE); Region: MdcE; pfam06833 935296004397 he Auxin Efflux Carrier (AEC) Family; Region: 2a69; TIGR00946 935296004398 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 935296004399 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 935296004400 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296004401 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296004402 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 935296004403 putative dimerization interface [polypeptide binding]; other site 935296004404 malate:quinone oxidoreductase; Validated; Region: PRK05257 935296004405 Predicted dehydrogenase [General function prediction only]; Region: COG0579 935296004406 N-acetylmuramic acid 6-phosphate etherase; Region: TIGR00274 935296004407 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 935296004408 putative active site [active] 935296004409 sensory histidine kinase DcuS; Provisional; Region: PRK11086 935296004410 Sensory domain of two-component sensor kinase; Region: Cache_3; pfam14827 935296004411 PAS domain; Region: PAS; smart00091 935296004412 Sensor_kinase_SpoOB-type, alpha-helical domain; Region: SPOB_a; pfam14689 935296004413 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 935296004414 ATP binding site [chemical binding]; other site 935296004415 Mg2+ binding site [ion binding]; other site 935296004416 G-X-G motif; other site 935296004417 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 935296004418 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 935296004419 active site 935296004420 phosphorylation site [posttranslational modification] 935296004421 intermolecular recognition site; other site 935296004422 dimerization interface [polypeptide binding]; other site 935296004423 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 935296004424 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 935296004425 putative active site [active] 935296004426 putative FMN binding site [chemical binding]; other site 935296004427 putative substrate binding site [chemical binding]; other site 935296004428 putative catalytic residue [active] 935296004429 FMN-binding domain; Region: FMN_bind; cl01081 935296004430 fumarate reductase flavoprotein subunit; Validated; Region: PRK06481 935296004431 L-aspartate oxidase; Provisional; Region: PRK06175 935296004432 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 935296004433 anion transporter; Region: dass; TIGR00785 935296004434 transmembrane helices; other site 935296004435 fumarate hydratase FumB; Provisional; Region: PRK15391 935296004436 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 935296004437 Fumarase C-terminus; Region: Fumerase_C; pfam05683 935296004438 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 935296004439 Mechanosensitive ion channel; Region: MS_channel; pfam00924 935296004440 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 935296004441 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 935296004442 Putative lysophospholipase; Region: Hydrolase_4; cl19140 935296004443 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 935296004444 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 935296004445 tetramer interface [polypeptide binding]; other site 935296004446 active site 935296004447 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 935296004448 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 935296004449 dimer interface [polypeptide binding]; other site 935296004450 active site 935296004451 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 935296004452 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 935296004453 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 935296004454 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 935296004455 Bacterial transcriptional regulator; Region: IclR; pfam01614 935296004456 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 935296004457 Smr domain; Region: Smr; pfam01713 935296004458 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 935296004459 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296004460 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 935296004461 dimerization interface [polypeptide binding]; other site 935296004462 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 935296004463 amidohydrolase; Region: amidohydrolases; TIGR01891 935296004464 putative metal binding site [ion binding]; other site 935296004465 dimer interface [polypeptide binding]; other site 935296004466 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 935296004467 amidohydrolase; Region: amidohydrolases; TIGR01891 935296004468 putative metal binding site [ion binding]; other site 935296004469 putative aminobenzoyl-glutamate transporter; Provisional; Region: abgT; PRK11339 935296004470 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 935296004471 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 935296004472 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 935296004473 DNA binding site [nucleotide binding] 935296004474 active site 935296004475 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 935296004476 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 935296004477 ligand binding site [chemical binding]; other site 935296004478 flexible hinge region; other site 935296004479 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 935296004480 putative switch regulator; other site 935296004481 non-specific DNA interactions [nucleotide binding]; other site 935296004482 DNA binding site [nucleotide binding] 935296004483 sequence specific DNA binding site [nucleotide binding]; other site 935296004484 putative cAMP binding site [chemical binding]; other site 935296004485 universal stress protein UspE; Provisional; Region: PRK11175 935296004486 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 935296004487 Ligand Binding Site [chemical binding]; other site 935296004488 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 935296004489 Ligand Binding Site [chemical binding]; other site 935296004490 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 935296004491 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 935296004492 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 935296004493 ligand binding site [chemical binding]; other site 935296004494 homodimer interface [polypeptide binding]; other site 935296004495 NAD(P) binding site [chemical binding]; other site 935296004496 trimer interface B [polypeptide binding]; other site 935296004497 trimer interface A [polypeptide binding]; other site 935296004498 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 935296004499 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 935296004500 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 935296004501 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 935296004502 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 935296004503 Spore germination protein; Region: Spore_permease; cl17796 935296004504 dihydromonapterin reductase; Provisional; Region: PRK06483 935296004505 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 935296004506 NAD(P) binding site [chemical binding]; other site 935296004507 active site 935296004508 GlpM protein; Region: GlpM; pfam06942 935296004509 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 935296004510 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 935296004511 active site 935296004512 phosphorylation site [posttranslational modification] 935296004513 intermolecular recognition site; other site 935296004514 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 935296004515 DNA binding site [nucleotide binding] 935296004516 sensor protein RstB; Provisional; Region: PRK10604 935296004517 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 935296004518 dimerization interface [polypeptide binding]; other site 935296004519 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 935296004520 dimer interface [polypeptide binding]; other site 935296004521 phosphorylation site [posttranslational modification] 935296004522 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 935296004523 ATP binding site [chemical binding]; other site 935296004524 Mg2+ binding site [ion binding]; other site 935296004525 G-X-G motif; other site 935296004526 DNA replication terminus site-binding protein; Provisional; Region: PRK02951 935296004527 fumarate hydratase; Reviewed; Region: fumC; PRK00485 935296004528 Class II fumarases; Region: Fumarase_classII; cd01362 935296004529 active site 935296004530 tetramer interface [polypeptide binding]; other site 935296004531 fumarate hydratase; Provisional; Region: PRK15389 935296004532 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 935296004533 Fumarase C-terminus; Region: Fumerase_C; pfam05683 935296004534 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 935296004535 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 935296004536 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 935296004537 DNA-binding transcriptional repressor MalI; Provisional; Region: PRK10014 935296004538 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 935296004539 DNA binding site [nucleotide binding] 935296004540 domain linker motif; other site 935296004541 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 935296004542 putative dimerization interface [polypeptide binding]; other site 935296004543 putative ligand binding site [chemical binding]; other site 935296004544 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 935296004545 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 935296004546 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 935296004547 active site turn [active] 935296004548 phosphorylation site [posttranslational modification] 935296004549 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 935296004550 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 935296004551 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296004552 homodimer interface [polypeptide binding]; other site 935296004553 catalytic residue [active] 935296004554 YdfZ protein; Region: YdfZ; pfam14001 935296004555 putative inner membrane protein; Provisional; Region: PRK11099 935296004556 Predicted transporter component [General function prediction only]; Region: COG2391 935296004557 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 935296004558 CPxP motif; other site 935296004559 Old yellow enzyme (OYE)-related FMN binding domain, group 2. 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_2_FMN; cd04733 935296004560 putative active site [active] 935296004561 putative FMN binding site [chemical binding]; other site 935296004562 putative substrate binding site [chemical binding]; other site 935296004563 putative catalytic residue [active] 935296004564 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 935296004565 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 935296004566 DNA binding residues [nucleotide binding] 935296004567 NLPA lipoprotein; Region: Lipoprotein_9; cl19159 935296004568 Protein of unknown function (DUF1398); Region: DUF1398; cl11576 935296004569 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 935296004570 active site 935296004571 purine riboside binding site [chemical binding]; other site 935296004572 putative oxidoreductase; Provisional; Region: PRK11579 935296004573 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 935296004574 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 935296004575 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 935296004576 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 935296004577 oriC-binding nucleoid-associated protein; Provisional; Region: PRK10391 935296004578 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 935296004579 electron transport complex protein RsxA; Provisional; Region: PRK05151 935296004580 ferredoxin; Provisional; Region: PRK08764 935296004581 Putative Fe-S cluster; Region: FeS; cl17515 935296004582 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; cl19102 935296004583 electron transport complex protein RnfC; Provisional; Region: PRK05035 935296004584 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 935296004585 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 935296004586 SLBB domain; Region: SLBB; pfam10531 935296004587 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 935296004588 Bacterial type III secretion protein (HrpB7); Region: HrpB7; cl09720 935296004589 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 935296004590 electron transport complex protein RnfG; Validated; Region: PRK01908 935296004591 electron transport complex RsxE subunit; Provisional; Region: PRK12405 935296004592 endonuclease III; Provisional; Region: PRK10702 935296004593 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 935296004594 minor groove reading motif; other site 935296004595 helix-hairpin-helix signature motif; other site 935296004596 substrate binding pocket [chemical binding]; other site 935296004597 active site 935296004598 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 935296004599 putative tripeptide transporter permease; Reviewed; Region: tppB; PRK09584 935296004600 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 935296004601 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 935296004602 putative substrate translocation pore; other site 935296004603 glutathionine S-transferase; Provisional; Region: PRK10542 935296004604 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 935296004605 C-terminal domain interface [polypeptide binding]; other site 935296004606 GSH binding site (G-site) [chemical binding]; other site 935296004607 dimer interface [polypeptide binding]; other site 935296004608 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 935296004609 N-terminal domain interface [polypeptide binding]; other site 935296004610 dimer interface [polypeptide binding]; other site 935296004611 substrate binding pocket (H-site) [chemical binding]; other site 935296004612 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 935296004613 dimer interface [polypeptide binding]; other site 935296004614 pyridoxal binding site [chemical binding]; other site 935296004615 ATP binding site [chemical binding]; other site 935296004616 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 935296004617 Protein of unknown function (DUF2859); Region: DUF2859; cl12633 935296004618 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 935296004619 active site 935296004620 HIGH motif; other site 935296004621 dimer interface [polypeptide binding]; other site 935296004622 KMSKS motif; other site 935296004623 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 935296004624 RNA binding surface [nucleotide binding]; other site 935296004625 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 935296004626 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 935296004627 Pyridoxine 5'-phosphate oxidase C-terminal dimerization region; Region: PNPOx_C; pfam10590 935296004628 lysozyme inhibitor; Provisional; Region: PRK11372 935296004629 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 935296004630 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 935296004631 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 935296004632 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 935296004633 metal binding site [ion binding]; metal-binding site 935296004634 active site 935296004635 I-site; other site 935296004636 transcriptional regulator SlyA; Provisional; Region: PRK03573 935296004637 Transcriptional regulators [Transcription]; Region: MarR; COG1846 935296004638 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 935296004639 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 935296004640 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 935296004641 HlyD family secretion protein; Region: HlyD_3; pfam13437 935296004642 Fusaric acid resistance protein family; Region: FUSC; pfam04632 935296004643 Fusaric acid resistance protein-like; Region: FUSC_2; cl19401 935296004644 superoxide dismutase; Provisional; Region: PRK10290 935296004645 E-class dimer interface [polypeptide binding]; other site 935296004646 P-class dimer interface [polypeptide binding]; other site 935296004647 active site 935296004648 Cu2+ binding site [ion binding]; other site 935296004649 Zn2+ binding site [ion binding]; other site 935296004650 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 935296004651 active site 935296004652 catalytic tetrad [active] 935296004653 Predicted Fe-S protein [General function prediction only]; Region: COG3313 935296004654 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 935296004655 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935296004656 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 935296004657 FMN binding site [chemical binding]; other site 935296004658 active site 935296004659 substrate binding site [chemical binding]; other site 935296004660 catalytic residue [active] 935296004661 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 935296004662 dimer interface [polypeptide binding]; other site 935296004663 active site 935296004664 metal binding site [ion binding]; metal-binding site 935296004665 glutathione binding site [chemical binding]; other site 935296004666 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 935296004667 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 935296004668 dimer interface [polypeptide binding]; other site 935296004669 catalytic site [active] 935296004670 putative active site [active] 935296004671 putative substrate binding site [chemical binding]; other site 935296004672 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 935296004673 putative GSH binding site [chemical binding]; other site 935296004674 catalytic residues [active] 935296004675 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 935296004676 NlpC/P60 family; Region: NLPC_P60; pfam00877 935296004677 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 935296004678 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296004679 superoxide dismutase; Provisional; Region: PRK10543 935296004680 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 935296004681 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 935296004682 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 935296004683 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 935296004684 putative substrate translocation pore; other site 935296004685 hypothetical protein; Provisional; Region: PRK14756 935296004686 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 935296004687 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 935296004688 DNA binding site [nucleotide binding] 935296004689 domain linker motif; other site 935296004690 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 935296004691 dimerization interface [polypeptide binding]; other site 935296004692 ligand binding site [chemical binding]; other site 935296004693 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 935296004694 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296004695 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 935296004696 dimerization interface [polypeptide binding]; other site 935296004697 putative transporter; Provisional; Region: PRK11043 935296004698 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 935296004699 putative substrate translocation pore; other site 935296004700 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 935296004701 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 935296004702 S-adenosylmethionine binding site [chemical binding]; other site 935296004703 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 935296004704 Lumazine binding domain; Region: Lum_binding; pfam00677 935296004705 Lumazine binding domain; Region: Lum_binding; pfam00677 935296004706 multidrug efflux protein; Reviewed; Region: PRK01766 935296004707 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 935296004708 cation binding site [ion binding]; other site 935296004709 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 935296004710 Uncharacterized conserved protein [Function unknown]; Region: COG1359 935296004711 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 935296004712 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 935296004713 non-specific DNA binding site [nucleotide binding]; other site 935296004714 salt bridge; other site 935296004715 sequence-specific DNA binding site [nucleotide binding]; other site 935296004716 Domain of unknown function (DU1801); Region: DUF1801; cl17490 935296004717 Cupin domain; Region: Cupin_2; pfam07883 935296004718 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 935296004719 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 935296004720 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 935296004721 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 935296004722 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 935296004723 active site clefts [active] 935296004724 zinc binding site [ion binding]; other site 935296004725 dimer interface [polypeptide binding]; other site 935296004726 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935296004727 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 935296004728 putative substrate translocation pore; other site 935296004729 GAF domain; Region: GAF; cl17456 935296004730 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 935296004731 PAS domain; Region: PAS; smart00091 935296004732 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 935296004733 Walker A motif; other site 935296004734 ATP binding site [chemical binding]; other site 935296004735 Walker B motif; other site 935296004736 arginine finger; other site 935296004737 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 935296004738 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 935296004739 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 935296004740 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 935296004741 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 935296004742 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 935296004743 catalytic residue [active] 935296004744 peptidase; Reviewed; Region: PRK13004 935296004745 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 935296004746 putative metal binding site [ion binding]; other site 935296004747 putative dimer interface [polypeptide binding]; other site 935296004748 phenylhydantoinase; Validated; Region: PRK08323 935296004749 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 935296004750 tetramer interface [polypeptide binding]; other site 935296004751 active site 935296004752 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 935296004753 putative substrate binding site [chemical binding]; other site 935296004754 nucleotide binding site [chemical binding]; other site 935296004755 nucleotide binding site [chemical binding]; other site 935296004756 homodimer interface [polypeptide binding]; other site 935296004757 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 935296004758 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 935296004759 XdhC Rossmann domain; Region: XdhC_C; pfam13478 935296004760 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 935296004761 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 935296004762 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 935296004763 metal-binding site 935296004764 putative selenate reductase subunit YgfK; Provisional; Region: PRK09853 935296004765 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 935296004766 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; cl19102 935296004767 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 935296004768 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 935296004769 putative selenium metabolism protein SsnA; Region: Se_ssnA; TIGR03314 935296004770 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 935296004771 active site 935296004772 putative substrate binding pocket [chemical binding]; other site 935296004773 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 935296004774 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; cl19102 935296004775 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12809 935296004776 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; cl19102 935296004777 Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; Region: Fer4_20; pfam14691 935296004778 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 935296004779 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935296004780 Sulfate transporter family; Region: Sulfate_transp; cl19250 935296004781 xanthine permease; Region: pbuX; TIGR03173 935296004782 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 935296004783 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 935296004784 molybdopterin cofactor binding site; other site 935296004785 Molybdopterin-Binding, C-terminal (MopB_CT) 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-...; Region: MopB_CT; cl09929 935296004786 molybdopterin cofactor binding site; other site 935296004787 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 935296004788 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 935296004789 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 935296004790 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 935296004791 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 935296004792 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 935296004793 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 935296004794 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 935296004795 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 935296004796 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 935296004797 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 935296004798 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 935296004799 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 935296004800 active site 935296004801 metal binding site [ion binding]; metal-binding site 935296004802 Chloramphenicol acetyltransferase; Region: CAT; cl02008 935296004803 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 935296004804 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 935296004805 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 935296004806 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 935296004807 dimer interface [polypeptide binding]; other site 935296004808 conserved gate region; other site 935296004809 putative PBP binding loops; other site 935296004810 ABC-ATPase subunit interface; other site 935296004811 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 935296004812 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 935296004813 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 935296004814 dimer interface [polypeptide binding]; other site 935296004815 conserved gate region; other site 935296004816 putative PBP binding loops; other site 935296004817 ABC-ATPase subunit interface; other site 935296004818 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 935296004819 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935296004820 Walker A/P-loop; other site 935296004821 ATP binding site [chemical binding]; other site 935296004822 Q-loop/lid; other site 935296004823 ABC transporter signature motif; other site 935296004824 Walker B; other site 935296004825 D-loop; other site 935296004826 H-loop/switch region; other site 935296004827 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 935296004828 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 935296004829 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935296004830 Walker A/P-loop; other site 935296004831 ATP binding site [chemical binding]; other site 935296004832 Q-loop/lid; other site 935296004833 ABC transporter signature motif; other site 935296004834 Walker B; other site 935296004835 D-loop; other site 935296004836 H-loop/switch region; other site 935296004837 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 935296004838 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 935296004839 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 935296004840 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 935296004841 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 935296004842 Trp docking motif [polypeptide binding]; other site 935296004843 putative active site [active] 935296004844 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296004845 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296004846 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 935296004847 putative dimerization interface [polypeptide binding]; other site 935296004848 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 935296004849 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 935296004850 putative acyltransferase; Provisional; Region: PRK05790 935296004851 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 935296004852 dimer interface [polypeptide binding]; other site 935296004853 active site 935296004854 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 935296004855 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 935296004856 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 935296004857 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 935296004858 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 935296004859 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935296004860 NAD(P) binding site [chemical binding]; other site 935296004861 active site 935296004862 TolA C-terminal; Region: TolA; pfam06519 935296004863 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 935296004864 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296004865 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 935296004866 dimerization interface [polypeptide binding]; other site 935296004867 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; pfam03306 935296004868 acetolactate synthase, catabolic; Region: acolac_catab; TIGR02418 935296004869 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 935296004870 PYR/PP interface [polypeptide binding]; other site 935296004871 dimer interface [polypeptide binding]; other site 935296004872 TPP binding site [chemical binding]; other site 935296004873 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 935296004874 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 935296004875 TPP-binding site [chemical binding]; other site 935296004876 dimer interface [polypeptide binding]; other site 935296004877 acetoin reductase; Validated; Region: PRK08643 935296004878 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 935296004879 NAD binding site [chemical binding]; other site 935296004880 homotetramer interface [polypeptide binding]; other site 935296004881 homodimer interface [polypeptide binding]; other site 935296004882 active site 935296004883 substrate binding site [chemical binding]; other site 935296004884 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 935296004885 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935296004886 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 935296004887 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 935296004888 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 935296004889 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 935296004890 Cytochrome c; Region: Cytochrom_C; cl11414 935296004891 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 935296004892 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 935296004893 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 935296004894 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 935296004895 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 935296004896 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 935296004897 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 935296004898 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 935296004899 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 935296004900 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296004901 Walker A/P-loop; other site 935296004902 ATP binding site [chemical binding]; other site 935296004903 Q-loop/lid; other site 935296004904 ABC transporter signature motif; other site 935296004905 Walker B; other site 935296004906 D-loop; other site 935296004907 H-loop/switch region; other site 935296004908 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 935296004909 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 935296004910 dimer interface [polypeptide binding]; other site 935296004911 conserved gate region; other site 935296004912 putative PBP binding loops; other site 935296004913 ABC-ATPase subunit interface; other site 935296004914 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 935296004915 dimer interface [polypeptide binding]; other site 935296004916 conserved gate region; other site 935296004917 putative PBP binding loops; other site 935296004918 ABC-ATPase subunit interface; other site 935296004919 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 935296004920 putative dehydrogenase; Provisional; Region: PRK10098 935296004921 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 935296004922 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 935296004923 [4Fe-4S] binding site [ion binding]; other site 935296004924 molybdopterin cofactor binding site; other site 935296004925 Molybdopterin-Binding, C-terminal (MopB_CT) 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-...; Region: MopB_CT; cl09929 935296004926 molybdopterin cofactor binding site; other site 935296004927 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 935296004928 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; cl17220 935296004929 Helix-turn-helix domain; Region: HTH_18; pfam12833 935296004930 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 935296004931 NAD(P) binding site [chemical binding]; other site 935296004932 catalytic residues [active] 935296004933 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 935296004934 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296004935 Coenzyme A binding pocket [chemical binding]; other site 935296004936 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 935296004937 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 935296004938 non-specific DNA binding site [nucleotide binding]; other site 935296004939 salt bridge; other site 935296004940 sequence-specific DNA binding site [nucleotide binding]; other site 935296004941 Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]; Region: phoE; COG0406 935296004942 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 935296004943 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 935296004944 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 935296004945 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 935296004946 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935296004947 YjgH belongs 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 similarity and no...; Region: YjgH_like; cd02198 935296004948 homotrimer interaction site [polypeptide binding]; other site 935296004949 putative active site [active] 935296004950 SnoaL-like domain; Region: SnoaL_2; pfam12680 935296004951 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 935296004952 Zn binding site [ion binding]; other site 935296004953 Integrase core domain; Region: rve_3; cl15866 935296004954 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 935296004955 LysE type translocator; Region: LysE; cl00565 935296004956 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 935296004957 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 935296004958 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 935296004959 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 935296004960 Putative lysophospholipase; Region: Hydrolase_4; cl19140 935296004961 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 935296004962 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 935296004963 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 935296004964 putative substrate translocation pore; other site 935296004965 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296004966 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296004967 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 935296004968 putative effector binding pocket; other site 935296004969 putative dimerization interface [polypeptide binding]; other site 935296004970 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 935296004971 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935296004972 NAD(P) binding site [chemical binding]; other site 935296004973 active site 935296004974 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 935296004975 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 935296004976 metal binding site [ion binding]; metal-binding site 935296004977 putative dimer interface [polypeptide binding]; other site 935296004978 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 935296004979 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935296004980 putative substrate translocation pore; other site 935296004981 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 935296004982 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 935296004983 Walker A/P-loop; other site 935296004984 ATP binding site [chemical binding]; other site 935296004985 Q-loop/lid; other site 935296004986 ABC transporter signature motif; other site 935296004987 Walker B; other site 935296004988 D-loop; other site 935296004989 H-loop/switch region; other site 935296004990 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 935296004991 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 935296004992 dimer interface [polypeptide binding]; other site 935296004993 conserved gate region; other site 935296004994 putative PBP binding loops; other site 935296004995 ABC-ATPase subunit interface; other site 935296004996 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 935296004997 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 935296004998 substrate binding pocket [chemical binding]; other site 935296004999 membrane-bound complex binding site; other site 935296005000 hinge residues; other site 935296005001 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 935296005002 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 935296005003 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; cd04795 935296005004 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 935296005005 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 935296005006 siderophore binding site; other site 935296005007 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 935296005008 ABC-ATPase subunit interface; other site 935296005009 dimer interface [polypeptide binding]; other site 935296005010 putative PBP binding regions; other site 935296005011 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 935296005012 dimer interface [polypeptide binding]; other site 935296005013 putative PBP binding regions; other site 935296005014 ABC-ATPase subunit interface; other site 935296005015 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 935296005016 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 935296005017 NMT1-like family; Region: NMT1_2; cl17432 935296005018 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 935296005019 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 935296005020 membrane-bound complex binding site; other site 935296005021 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 935296005022 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 935296005023 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 935296005024 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 935296005025 dimer interface [polypeptide binding]; other site 935296005026 active site 935296005027 non-prolyl cis peptide bond; other site 935296005028 insertion regions; other site 935296005029 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296005030 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296005031 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 935296005032 dimerization interface [polypeptide binding]; other site 935296005033 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 935296005034 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 935296005035 active site residue [active] 935296005036 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 935296005037 active site residue [active] 935296005038 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 935296005039 active site residue [active] 935296005040 Member of the Rhodanese Homology Domain superfamily, repeat 4. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 4th repeat which, in general, contains the putative...; Region: 4RHOD_Repeat_4; cd01535 935296005041 active site residue [active] 935296005042 Domain of unknown function (DUF1996); Region: DUF1996; pfam09362 935296005043 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 935296005044 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 935296005045 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 935296005046 putative ligand binding residues [chemical binding]; other site 935296005047 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 935296005048 ABC-ATPase subunit interface; other site 935296005049 dimer interface [polypeptide binding]; other site 935296005050 putative PBP binding regions; other site 935296005051 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 935296005052 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296005053 Walker A/P-loop; other site 935296005054 ATP binding site [chemical binding]; other site 935296005055 Q-loop/lid; other site 935296005056 ABC transporter signature motif; other site 935296005057 Walker B; other site 935296005058 D-loop; other site 935296005059 H-loop/switch region; other site 935296005060 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 935296005061 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 935296005062 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 935296005063 shikimate binding site; other site 935296005064 NAD(P) binding site [chemical binding]; other site 935296005065 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 935296005066 D-galactonate transporter; Region: 2A0114; TIGR00893 935296005067 putative substrate translocation pore; other site 935296005068 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 935296005069 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 935296005070 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 935296005071 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 935296005072 dimer interface [polypeptide binding]; other site 935296005073 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 935296005074 active site 935296005075 Fe binding site [ion binding]; other site 935296005076 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 935296005077 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935296005078 hypothetical protein; Provisional; Region: PRK10292 935296005079 pyruvate kinase; Provisional; Region: PRK09206 935296005080 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 935296005081 domain interfaces; other site 935296005082 active site 935296005083 murein lipoprotein; Provisional; Region: PRK15396 935296005084 L,D-transpeptidase; Provisional; Region: PRK10260 935296005085 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 935296005086 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 935296005087 cysteine desufuration protein SufE; Provisional; Region: PRK09296 935296005088 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 935296005089 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 935296005090 catalytic residue [active] 935296005091 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 935296005092 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 935296005093 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 935296005094 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 935296005095 Walker A/P-loop; other site 935296005096 ATP binding site [chemical binding]; other site 935296005097 Q-loop/lid; other site 935296005098 ABC transporter signature motif; other site 935296005099 Walker B; other site 935296005100 D-loop; other site 935296005101 H-loop/switch region; other site 935296005102 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 935296005103 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 935296005104 iron-sulfur cluster assembly scaffold protein; Provisional; Region: sufA; PRK09504 935296005105 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 935296005106 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 935296005107 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 935296005108 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 935296005109 CoenzymeA binding site [chemical binding]; other site 935296005110 subunit interaction site [polypeptide binding]; other site 935296005111 PHB binding site; other site 935296005112 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 935296005113 FAD binding domain; Region: FAD_binding_4; pfam01565 935296005114 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 935296005115 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 935296005116 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 935296005117 putative inner membrane protein; Provisional; Region: PRK10983 935296005118 phosphoenolpyruvate synthase; Validated; Region: PRK06464 935296005119 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 935296005120 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 935296005121 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 935296005122 PEP synthetase regulatory protein; Provisional; Region: PRK05339 935296005123 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 935296005124 hypothetical protein; Provisional; Region: PRK10183 935296005125 hypothetical protein; Validated; Region: PRK00029 935296005126 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 935296005127 NlpC/P60 family; Region: NLPC_P60; pfam00877 935296005128 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 935296005129 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 935296005130 Walker A/P-loop; other site 935296005131 ATP binding site [chemical binding]; other site 935296005132 Q-loop/lid; other site 935296005133 ABC transporter signature motif; other site 935296005134 Walker B; other site 935296005135 D-loop; other site 935296005136 H-loop/switch region; other site 935296005137 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 935296005138 catalytic residues [active] 935296005139 dimer interface [polypeptide binding]; other site 935296005140 NLPA lipoprotein; Region: Lipoprotein_9; cl19159 935296005141 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 935296005142 ABC-ATPase subunit interface; other site 935296005143 dimer interface [polypeptide binding]; other site 935296005144 putative PBP binding regions; other site 935296005145 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 935296005146 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296005147 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296005148 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 935296005149 dimerization interface [polypeptide binding]; other site 935296005150 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 935296005151 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 935296005152 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 935296005153 homotrimer interaction site [polypeptide binding]; other site 935296005154 putative active site [active] 935296005155 Alpha subunit of integration host factor (IHFA); Region: IHF_A; cd13835 935296005156 DNA binding site [nucleotide binding] 935296005157 dimer interface [polypeptide binding]; other site 935296005158 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 935296005159 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 935296005160 putative tRNA-binding site [nucleotide binding]; other site 935296005161 B3/4 domain; Region: B3_4; pfam03483 935296005162 tRNA synthetase B5 domain; Region: B5; smart00874 935296005163 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 935296005164 dimer interface [polypeptide binding]; other site 935296005165 motif 1; other site 935296005166 motif 3; other site 935296005167 motif 2; other site 935296005168 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 935296005169 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 935296005170 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 935296005171 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 935296005172 dimer interface [polypeptide binding]; other site 935296005173 motif 1; other site 935296005174 active site 935296005175 motif 2; other site 935296005176 motif 3; other site 935296005177 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 935296005178 23S rRNA binding site [nucleotide binding]; other site 935296005179 L21 binding site [polypeptide binding]; other site 935296005180 L13 binding site [polypeptide binding]; other site 935296005181 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 935296005182 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 935296005183 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 935296005184 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 935296005185 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 935296005186 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 935296005187 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 935296005188 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 935296005189 active site 935296005190 dimer interface [polypeptide binding]; other site 935296005191 motif 1; other site 935296005192 motif 2; other site 935296005193 motif 3; other site 935296005194 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 935296005195 anticodon binding site; other site 935296005196 Putative salt-induced outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG3137 935296005197 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 935296005198 putative substrate binding site [chemical binding]; other site 935296005199 putative ATP binding site [chemical binding]; other site 935296005200 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 935296005201 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3001 935296005202 Phosphotransferase enzyme family; Region: APH; pfam01636 935296005203 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 935296005204 active site 935296005205 substrate binding site [chemical binding]; other site 935296005206 ATP binding site [chemical binding]; other site 935296005207 transport protein TonB; Provisional; Region: PRK10819 935296005208 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; pfam03544 935296005209 YciI-like protein; Reviewed; Region: PRK11370 935296005210 hypothetical protein; Provisional; Region: PRK09951 935296005211 Integrase core domain; Region: rve; pfam00665 935296005212 Transposase; Region: HTH_Tnp_1; cl17663 935296005213 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 935296005214 MASE1; Region: MASE1; cl17823 935296005215 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 935296005216 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 935296005217 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 935296005218 putative substrate translocation pore; other site 935296005219 Oligogalacturonate lyase; Region: Pectate_lyase22; pfam14583 935296005220 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 935296005221 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 935296005222 Transposase; Region: HTH_Tnp_1; pfam01527 935296005223 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 935296005224 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 935296005225 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 935296005226 putative active site [active] 935296005227 catalytic site [active] 935296005228 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 935296005229 putative active site [active] 935296005230 catalytic site [active] 935296005231 dsDNA-mimic protein; Reviewed; Region: PRK05094 935296005232 Ion transport protein; Region: Ion_trans; pfam00520 935296005233 Ion channel; Region: Ion_trans_2; pfam07885 935296005234 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 935296005235 Double zinc ribbon; Region: DZR; pfam12773 935296005236 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 935296005237 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935296005238 Walker A/P-loop; other site 935296005239 ATP binding site [chemical binding]; other site 935296005240 Q-loop/lid; other site 935296005241 ABC transporter signature motif; other site 935296005242 Walker B; other site 935296005243 D-loop; other site 935296005244 H-loop/switch region; other site 935296005245 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 935296005246 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 935296005247 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935296005248 Walker A/P-loop; other site 935296005249 ATP binding site [chemical binding]; other site 935296005250 Q-loop/lid; other site 935296005251 ABC transporter signature motif; other site 935296005252 Walker B; other site 935296005253 D-loop; other site 935296005254 H-loop/switch region; other site 935296005255 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 935296005256 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 935296005257 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 935296005258 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 935296005259 dimer interface [polypeptide binding]; other site 935296005260 conserved gate region; other site 935296005261 putative PBP binding loops; other site 935296005262 ABC-ATPase subunit interface; other site 935296005263 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 935296005264 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 935296005265 dimer interface [polypeptide binding]; other site 935296005266 conserved gate region; other site 935296005267 putative PBP binding loops; other site 935296005268 ABC-ATPase subunit interface; other site 935296005269 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 935296005270 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 935296005271 peptide binding site [polypeptide binding]; other site 935296005272 hypothetical protein; Provisional; Region: PRK11111 935296005273 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 935296005274 Coenzyme A acylating aldehyde dehydrogenase (ACDH), Ethanolamine utilization protein EutE, and related proteins; Region: ALDH_F20_ACDH_EutE-like; cd07081 935296005275 putative catalytic cysteine [active] 935296005276 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 935296005277 putative active site [active] 935296005278 metal binding site [ion binding]; metal-binding site 935296005279 thymidine kinase; Provisional; Region: PRK04296 935296005280 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 935296005281 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 935296005282 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 935296005283 active site 935296005284 tetramer interface; other site 935296005285 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 935296005286 active site 935296005287 response regulator of RpoS; Provisional; Region: PRK10693 935296005288 phosphorylation site [posttranslational modification] 935296005289 intermolecular recognition site; other site 935296005290 dimerization interface [polypeptide binding]; other site 935296005291 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 935296005292 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 935296005293 active site 935296005294 nucleophile elbow; other site 935296005295 SEC-C motif; Region: SEC-C; cl19389 935296005296 SEC-C motif; Region: SEC-C; cl19389 935296005297 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 935296005298 putative active site [active] 935296005299 putative substrate binding site [chemical binding]; other site 935296005300 putative cosubstrate binding site; other site 935296005301 catalytic site [active] 935296005302 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 935296005303 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 935296005304 putative DNA binding site [nucleotide binding]; other site 935296005305 putative Zn2+ binding site [ion binding]; other site 935296005306 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 935296005307 EamA-like transporter family; Region: EamA; pfam00892 935296005308 EamA-like transporter family; Region: EamA; pfam00892 935296005309 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 935296005310 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 935296005311 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 935296005312 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 935296005313 Respiratory nitrate reductase beta C-terminal; Region: Nitr_red_bet_C; pfam14711 935296005314 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 935296005315 Respiratory nitrate reductase alpha N-terminal; Region: Nitr_red_alph_N; pfam14710 935296005316 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 935296005317 [4Fe-4S] binding site [ion binding]; other site 935296005318 molybdopterin cofactor binding site [chemical binding]; other site 935296005319 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 935296005320 molybdopterin cofactor binding site; other site 935296005321 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 935296005322 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 935296005323 putative substrate translocation pore; other site 935296005324 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 935296005325 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 935296005326 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 935296005327 dimerization interface [polypeptide binding]; other site 935296005328 Histidine kinase; Region: HisKA_3; pfam07730 935296005329 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 935296005330 ATP binding site [chemical binding]; other site 935296005331 Mg2+ binding site [ion binding]; other site 935296005332 G-X-G motif; other site 935296005333 transcriptional regulator NarL; Provisional; Region: PRK10651 935296005334 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 935296005335 active site 935296005336 phosphorylation site [posttranslational modification] 935296005337 intermolecular recognition site; other site 935296005338 dimerization interface [polypeptide binding]; other site 935296005339 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 935296005340 DNA binding residues [nucleotide binding] 935296005341 dimerization interface [polypeptide binding]; other site 935296005342 putative invasin; Provisional; Region: PRK10177 935296005343 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 935296005344 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 935296005345 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 935296005346 [4Fe-4S] binding site [ion binding]; other site 935296005347 molybdopterin cofactor binding site; other site 935296005348 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 935296005349 molybdopterin cofactor binding site; other site 935296005350 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 935296005351 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 935296005352 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935296005353 nitrite reductase subunit NirD; Provisional; Region: PRK14989 935296005354 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 935296005355 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935296005356 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 935296005357 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 935296005358 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 935296005359 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 935296005360 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 935296005361 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 935296005362 Walker A/P-loop; other site 935296005363 ATP binding site [chemical binding]; other site 935296005364 Q-loop/lid; other site 935296005365 ABC transporter signature motif; other site 935296005366 Walker B; other site 935296005367 D-loop; other site 935296005368 H-loop/switch region; other site 935296005369 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 935296005370 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 935296005371 dimer interface [polypeptide binding]; other site 935296005372 conserved gate region; other site 935296005373 putative PBP binding loops; other site 935296005374 ABC-ATPase subunit interface; other site 935296005375 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 935296005376 NMT1-like family; Region: NMT1_2; pfam13379 935296005377 Nitrate and nitrite sensing; Region: NIT; pfam08376 935296005378 ANTAR domain; Region: ANTAR; pfam03861 935296005379 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 935296005380 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 935296005381 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 935296005382 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 935296005383 putative active site pocket [active] 935296005384 dimerization interface [polypeptide binding]; other site 935296005385 putative catalytic residue [active] 935296005386 cation transport regulator; Reviewed; Region: chaB; PRK09582 935296005387 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 935296005388 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 935296005389 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; COG2877 935296005390 hypothetical protein; Provisional; Region: PRK10941 935296005391 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 935296005392 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 935296005393 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 935296005394 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 935296005395 S-adenosylmethionine binding site [chemical binding]; other site 935296005396 peptide chain release factor 1; Validated; Region: prfA; PRK00591 935296005397 This domain is found in peptide chain release factors; Region: PCRF; smart00937 935296005398 RF-1 domain; Region: RF-1; pfam00472 935296005399 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 935296005400 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 935296005401 tRNA; other site 935296005402 putative tRNA binding site [nucleotide binding]; other site 935296005403 putative NADP binding site [chemical binding]; other site 935296005404 Glutamyl-tRNAGlu reductase, dimerization domain; Region: GlutR_dimer; pfam00745 935296005405 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 935296005406 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 935296005407 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 935296005408 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 935296005409 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 935296005410 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 935296005411 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935296005412 active site 935296005413 putative transporter; Provisional; Region: PRK11660 935296005414 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 935296005415 Sulfate transporter family; Region: Sulfate_transp; pfam00916 935296005416 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 935296005417 hypothetical protein; Provisional; Region: PRK10692 935296005418 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 935296005419 putative active site [active] 935296005420 catalytic residue [active] 935296005421 GTP-binding protein YchF; Reviewed; Region: PRK09601 935296005422 YchF GTPase; Region: YchF; cd01900 935296005423 G1 box; other site 935296005424 GTP/Mg2+ binding site [chemical binding]; other site 935296005425 Switch I region; other site 935296005426 G2 box; other site 935296005427 Switch II region; other site 935296005428 G3 box; other site 935296005429 G4 box; other site 935296005430 G5 box; other site 935296005431 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 935296005432 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 935296005433 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 935296005434 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 935296005435 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 935296005436 S-adenosylmethionine binding site [chemical binding]; other site 935296005437 hypothetical protein; Provisional; Region: PRK13687 935296005438 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 935296005439 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 935296005440 DNA-binding site [nucleotide binding]; DNA binding site 935296005441 RNA-binding motif; other site 935296005442 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 935296005443 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 935296005444 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 935296005445 Rrf2 family protein; Region: rrf2_super; TIGR00738 935296005446 Transcriptional regulator; Region: Rrf2; pfam02082 935296005447 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 935296005448 Protein of unknown function (DUF561); Region: DUF561; pfam04481 935296005449 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 935296005450 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 935296005451 HlyD family secretion protein; Region: HlyD_3; pfam13437 935296005452 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 935296005453 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296005454 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296005455 TolA C-terminal; Region: TolA; pfam06519 935296005456 transcriptional regulator MirA; Provisional; Region: PRK15043 935296005457 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 935296005458 DNA binding residues [nucleotide binding] 935296005459 Protein of unknown function (DUF523); Region: DUF523; pfam04463 935296005460 Uncharacterized conserved protein [Function unknown]; Region: COG3272 935296005461 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 935296005462 active site 935296005463 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 935296005464 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 935296005465 Transposase; Region: HTH_Tnp_1; cl17663 935296005466 isocitrate dehydrogenase; Reviewed; Region: PRK07006 935296005467 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 935296005468 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 935296005469 probable active site [active] 935296005470 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 935296005471 nudix motif; other site 935296005472 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 935296005473 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 935296005474 Ligand Binding Site [chemical binding]; other site 935296005475 putative lysogenization regulator; Reviewed; Region: PRK00218 935296005476 adenylosuccinate lyase; Provisional; Region: PRK09285 935296005477 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 935296005478 tetramer interface [polypeptide binding]; other site 935296005479 active site 935296005480 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 935296005481 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 935296005482 active site 935296005483 phosphorylation site [posttranslational modification] 935296005484 intermolecular recognition site; other site 935296005485 dimerization interface [polypeptide binding]; other site 935296005486 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 935296005487 DNA binding site [nucleotide binding] 935296005488 sensor protein PhoQ; Provisional; Region: PRK10815 935296005489 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 935296005490 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 935296005491 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 935296005492 ATP binding site [chemical binding]; other site 935296005493 Mg2+ binding site [ion binding]; other site 935296005494 G-X-G motif; other site 935296005495 Uncharacterized conserved protein [Function unknown]; Region: COG2850 935296005496 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 935296005497 peptidase T-like protein; Region: PepT-like; TIGR01883 935296005498 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 935296005499 metal binding site [ion binding]; metal-binding site 935296005500 dimer interface [polypeptide binding]; other site 935296005501 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 935296005502 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 935296005503 Walker A/P-loop; other site 935296005504 ATP binding site [chemical binding]; other site 935296005505 Q-loop/lid; other site 935296005506 ABC transporter signature motif; other site 935296005507 Walker B; other site 935296005508 D-loop; other site 935296005509 H-loop/switch region; other site 935296005510 TOBE domain; Region: TOBE_2; pfam08402 935296005511 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 935296005512 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 935296005513 dimer interface [polypeptide binding]; other site 935296005514 conserved gate region; other site 935296005515 putative PBP binding loops; other site 935296005516 ABC-ATPase subunit interface; other site 935296005517 spermidine/putrescine ABC transporter membrane protein; Reviewed; Region: potC; PRK09500 935296005518 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 935296005519 dimer interface [polypeptide binding]; other site 935296005520 conserved gate region; other site 935296005521 putative PBP binding loops; other site 935296005522 ABC-ATPase subunit interface; other site 935296005523 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 935296005524 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 935296005525 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 935296005526 dimer interface [polypeptide binding]; other site 935296005527 acyl-activating enzyme (AAE) consensus motif; other site 935296005528 putative active site [active] 935296005529 AMP binding site [chemical binding]; other site 935296005530 putative CoA binding site [chemical binding]; other site 935296005531 transketolase; Reviewed; Region: PRK12753 935296005532 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 935296005533 TPP-binding site [chemical binding]; other site 935296005534 dimer interface [polypeptide binding]; other site 935296005535 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 935296005536 PYR/PP interface [polypeptide binding]; other site 935296005537 dimer interface [polypeptide binding]; other site 935296005538 TPP binding site [chemical binding]; other site 935296005539 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 935296005540 transaldolase-like protein; Provisional; Region: PTZ00411 935296005541 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 935296005542 active site 935296005543 dimer interface [polypeptide binding]; other site 935296005544 catalytic residue [active] 935296005545 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 935296005546 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; pfam03829 935296005547 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 935296005548 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 935296005549 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 935296005550 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 935296005551 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 935296005552 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 935296005553 substrate binding site [chemical binding]; other site 935296005554 dimer interface [polypeptide binding]; other site 935296005555 catalytic triad [active] 935296005556 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 935296005557 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; cl17257 935296005558 DNA binding residues [nucleotide binding] 935296005559 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 935296005560 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 935296005561 NAD+ binding site [chemical binding]; other site 935296005562 substrate binding site [chemical binding]; other site 935296005563 Zn binding site [ion binding]; other site 935296005564 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 935296005565 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 935296005566 nucleotide binding site [chemical binding]; other site 935296005567 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 935296005568 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 935296005569 FtsX-like permease family; Region: FtsX; pfam02687 935296005570 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 935296005571 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 935296005572 Walker A/P-loop; other site 935296005573 ATP binding site [chemical binding]; other site 935296005574 Q-loop/lid; other site 935296005575 ABC transporter signature motif; other site 935296005576 Walker B; other site 935296005577 D-loop; other site 935296005578 H-loop/switch region; other site 935296005579 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 935296005580 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 935296005581 FtsX-like permease family; Region: FtsX; pfam02687 935296005582 transcription-repair coupling factor; Provisional; Region: PRK10689 935296005583 Bifunctional transglycosylase second domain; Region: UB2H; pfam14814 935296005584 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 935296005585 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 935296005586 ATP binding site [chemical binding]; other site 935296005587 putative Mg++ binding site [ion binding]; other site 935296005588 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 935296005589 nucleotide binding region [chemical binding]; other site 935296005590 ATP-binding site [chemical binding]; other site 935296005591 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 935296005592 L,D-transpeptidase; Provisional; Region: PRK10260 935296005593 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 935296005594 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 935296005595 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 935296005596 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 935296005597 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935296005598 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 935296005599 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 935296005600 N-terminal plug; other site 935296005601 ligand-binding site [chemical binding]; other site 935296005602 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 935296005603 hypothetical protein; Provisional; Region: PRK11280 935296005604 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 935296005605 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935296005606 hypothetical protein; Provisional; Region: PRK04940 935296005607 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 935296005608 beta-hexosaminidase; Provisional; Region: PRK05337 935296005609 Phosphotransferase enzyme family; Region: APH; pfam01636 935296005610 active site 935296005611 substrate binding site [chemical binding]; other site 935296005612 ATP binding site [chemical binding]; other site 935296005613 thiamine kinase; Provisional; Region: thiK; PRK10271 935296005614 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 935296005615 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 935296005616 putative dimer interface [polypeptide binding]; other site 935296005617 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 935296005618 nucleotide binding site/active site [active] 935296005619 HIT family signature motif; other site 935296005620 catalytic residue [active] 935296005621 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 935296005622 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 935296005623 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 935296005624 active site turn [active] 935296005625 phosphorylation site [posttranslational modification] 935296005626 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 935296005627 active site 935296005628 DNA polymerase III subunit delta'; Validated; Region: PRK07993 935296005629 DNA polymerase III subunit delta'; Validated; Region: PRK08485 935296005630 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 935296005631 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 935296005632 dimerization interface [polypeptide binding]; other site 935296005633 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 935296005634 thymidylate kinase; Validated; Region: tmk; PRK00698 935296005635 TMP-binding site; other site 935296005636 ATP-binding site [chemical binding]; other site 935296005637 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 935296005638 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296005639 catalytic residue [active] 935296005640 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 935296005641 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 935296005642 dimer interface [polypeptide binding]; other site 935296005643 active site 935296005644 acyl carrier protein; Provisional; Region: acpP; PRK00982 935296005645 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 935296005646 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 935296005647 NAD(P) binding site [chemical binding]; other site 935296005648 homotetramer interface [polypeptide binding]; other site 935296005649 homodimer interface [polypeptide binding]; other site 935296005650 active site 935296005651 Acyl transferase domain; Region: Acyl_transf_1; cl08282 935296005652 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 935296005653 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 935296005654 dimer interface [polypeptide binding]; other site 935296005655 active site 935296005656 CoA binding pocket [chemical binding]; other site 935296005657 putative phosphate acyltransferase; Provisional; Region: PRK05331 935296005658 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 935296005659 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 935296005660 active site 935296005661 dimer interface [polypeptide binding]; other site 935296005662 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 935296005663 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 935296005664 RNA binding surface [nucleotide binding]; other site 935296005665 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 935296005666 active site 935296005667 ribonuclease E; Reviewed; Region: rne; PRK10811 935296005668 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 935296005669 homodimer interface [polypeptide binding]; other site 935296005670 oligonucleotide binding site [chemical binding]; other site 935296005671 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 935296005672 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 935296005673 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296005674 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296005675 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 935296005676 putative effector binding pocket; other site 935296005677 dimerization interface [polypeptide binding]; other site 935296005678 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 935296005679 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 935296005680 putative substrate translocation pore; other site 935296005681 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 935296005682 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 935296005683 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 935296005684 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 935296005685 hypothetical protein; Provisional; Region: PRK11239 935296005686 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional; Region: PRK10809 935296005687 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 935296005688 multidrug resistance protein MdtH; Provisional; Region: PRK11646 935296005689 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 935296005690 putative substrate translocation pore; other site 935296005691 lipoprotein; Provisional; Region: PRK10598 935296005692 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 935296005693 active site 935296005694 substrate binding pocket [chemical binding]; other site 935296005695 dimer interface [polypeptide binding]; other site 935296005696 DinI-like family; Region: DinI; cl11630 935296005697 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 935296005698 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 935296005699 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 935296005700 Protein of unknown function (DUF2770); Region: DUF2770; pfam10968 935296005701 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 935296005702 Methyl-coenzyme M reductase (MCR) gamma subunit. MCR catalyzes the terminal step of methane formation in the energy metabolism of all methanogenic archaea, in which methyl-coenzyme M and coenzyme B are converted to methane and the heterodisulfide of...; Region: MCR_gamma; cl00247 935296005703 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 935296005704 active site residue [active] 935296005705 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 935296005706 putative acyl-acceptor binding pocket; other site 935296005707 drug efflux system protein MdtG; Provisional; Region: PRK09874 935296005708 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 935296005709 putative substrate translocation pore; other site 935296005710 secY/secA suppressor protein; Provisional; Region: PRK11467 935296005711 lipoprotein; Provisional; Region: PRK10175 935296005712 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 935296005713 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 935296005714 Ligand binding site; other site 935296005715 DXD motif; other site 935296005716 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 935296005717 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 935296005718 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 935296005719 putative ADP-ribose binding site [chemical binding]; other site 935296005720 putative active site [active] 935296005721 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 935296005722 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 935296005723 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 935296005724 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 935296005725 putative hydrolase; Validated; Region: PRK09248 935296005726 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 935296005727 active site 935296005728 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; cl19132 935296005729 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 935296005730 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; cl19132 935296005731 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 935296005732 LysR family transcriptional regulator; Provisional; Region: PRK14997 935296005733 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296005734 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 935296005735 putative effector binding pocket; other site 935296005736 putative dimerization interface [polypeptide binding]; other site 935296005737 Pirin-related protein [General function prediction only]; Region: COG1741 935296005738 Pirin; Region: Pirin; pfam02678 935296005739 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 935296005740 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 935296005741 catalytic triad [active] 935296005742 conserved cis-peptide bond; other site 935296005743 hypothetical protein; Provisional; Region: PRK10536 935296005744 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 935296005745 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 935296005746 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 935296005747 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 935296005748 Imelysin; Region: Peptidase_M75; pfam09375 935296005749 Iron permease FTR1 family; Region: FTR1; cl00475 935296005750 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 935296005751 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 935296005752 Nucleoside recognition; Region: Gate; pfam07670 935296005753 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 935296005754 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 935296005755 Domain of unknown function DUF20; Region: UPF0118; cl00465 935296005756 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 935296005757 Na binding site [ion binding]; other site 935296005758 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 935296005759 Predicted transcriptional regulator [Transcription]; Region: COG3905 935296005760 DNA-binding domain of Proline dehydrogenase; Region: Pro_dh-DNA_bdg; pfam14850 935296005761 Proline dehydrogenase; Region: Pro_dh; pfam01619 935296005762 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 935296005763 Glutamate binding site [chemical binding]; other site 935296005764 NAD binding site [chemical binding]; other site 935296005765 catalytic residues [active] 935296005766 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 935296005767 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 935296005768 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935296005769 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 935296005770 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 935296005771 active site 935296005772 dimer interface [polypeptide binding]; other site 935296005773 non-prolyl cis peptide bond; other site 935296005774 insertion regions; other site 935296005775 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 935296005776 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 935296005777 catalytic triad [active] 935296005778 conserved cis-peptide bond; other site 935296005779 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 935296005780 homotrimer interaction site [polypeptide binding]; other site 935296005781 putative active site [active] 935296005782 pyrimidine utilization protein D; Region: RutD; TIGR03611 935296005783 Putative lysophospholipase; Region: Hydrolase_4; cl19140 935296005784 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 935296005785 putative FMN binding site [chemical binding]; other site 935296005786 Flavin Reductases; Region: FlaRed; cl00801 935296005787 Sulfate transporter family; Region: Sulfate_transp; cl19250 935296005788 uracil-xanthine permease; Region: ncs2; TIGR00801 935296005789 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 935296005790 EamA-like transporter family; Region: EamA; pfam00892 935296005791 EamA-like transporter family; Region: EamA; pfam00892 935296005792 General stress protein [General function prediction only]; Region: GsiB; COG3729 935296005793 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 935296005794 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 935296005795 hypothetical protein; Provisional; Region: PRK10174 935296005796 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 935296005797 catalytic core [active] 935296005798 amidophosphoribosyltransferase; Provisional; Region: PRK07631 935296005799 Protein of unknown function (DUF3274); Region: DUF3274; pfam11678 935296005800 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 935296005801 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 935296005802 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 935296005803 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 935296005804 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 935296005805 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 935296005806 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 935296005807 gamma-glutamyl-gamma-aminobutyrate hydrolase; Provisional; Region: puuD; PRK11366 935296005808 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 935296005809 catalytic triad [active] 935296005810 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 935296005811 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 935296005812 non-specific DNA binding site [nucleotide binding]; other site 935296005813 salt bridge; other site 935296005814 sequence-specific DNA binding site [nucleotide binding]; other site 935296005815 Cupin domain; Region: Cupin_2; pfam07883 935296005816 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 935296005817 NAD(P) binding site [chemical binding]; other site 935296005818 catalytic residues [active] 935296005819 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 935296005820 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 935296005821 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 935296005822 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 935296005823 inhibitor-cofactor binding pocket; inhibition site 935296005824 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296005825 catalytic residue [active] 935296005826 transcriptional activator TtdR; Provisional; Region: PRK09801 935296005827 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296005828 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_9; cd08479 935296005829 putative effector binding pocket; other site 935296005830 putative dimerization interface [polypeptide binding]; other site 935296005831 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 935296005832 putative transporter; Provisional; Region: PRK09950 935296005833 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 935296005834 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 935296005835 [2Fe-2S] cluster binding site [ion binding]; other site 935296005836 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_2; cd08886 935296005837 putative alpha subunit interface [polypeptide binding]; other site 935296005838 putative active site [active] 935296005839 putative substrate binding site [chemical binding]; other site 935296005840 Fe binding site [ion binding]; other site 935296005841 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 935296005842 tetramerization interface [polypeptide binding]; other site 935296005843 NAD(P) binding site [chemical binding]; other site 935296005844 catalytic residues [active] 935296005845 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 935296005846 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 935296005847 FMN-binding pocket [chemical binding]; other site 935296005848 flavin binding motif; other site 935296005849 phosphate binding motif [ion binding]; other site 935296005850 beta-alpha-beta structure motif; other site 935296005851 NAD binding pocket [chemical binding]; other site 935296005852 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 935296005853 catalytic loop [active] 935296005854 iron binding site [ion binding]; other site 935296005855 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 935296005856 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 935296005857 Walker A/P-loop; other site 935296005858 ATP binding site [chemical binding]; other site 935296005859 Q-loop/lid; other site 935296005860 ABC transporter signature motif; other site 935296005861 Walker B; other site 935296005862 D-loop; other site 935296005863 H-loop/switch region; other site 935296005864 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 935296005865 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 935296005866 dimer interface [polypeptide binding]; other site 935296005867 conserved gate region; other site 935296005868 putative PBP binding loops; other site 935296005869 ABC-ATPase subunit interface; other site 935296005870 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 935296005871 dimer interface [polypeptide binding]; other site 935296005872 conserved gate region; other site 935296005873 putative PBP binding loops; other site 935296005874 ABC-ATPase subunit interface; other site 935296005875 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 935296005876 Protein of unknown function, DUF399; Region: DUF399; pfam04187 935296005877 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 935296005878 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; pfam03544 935296005879 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 935296005880 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 935296005881 Uncharacterized conserved protein [Function unknown]; Region: COG3391 935296005882 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 935296005883 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 935296005884 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 935296005885 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 935296005886 DNA binding residues [nucleotide binding] 935296005887 flagellin; Validated; Region: PRK06819 935296005888 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 935296005889 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 935296005890 flagellar capping protein; Reviewed; Region: fliD; PRK08032 935296005891 Flagellar hook-associated protein 2 N-terminus; Region: FliD_N; pfam02465 935296005892 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 935296005893 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 935296005894 flagellar protein FliS; Validated; Region: fliS; PRK05685 935296005895 Flagellar protein FliT; Region: FliT; cl05125 935296005896 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 935296005897 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 935296005898 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 935296005899 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 935296005900 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 935296005901 FliG N-terminal domain; Region: FliG_N; pfam14842 935296005902 FliG middle domain; Region: FliG_M; pfam14841 935296005903 FliG C-terminal domain; Region: FliG_C; pfam01706 935296005904 flagellar assembly protein H; Validated; Region: fliH; PRK05687 935296005905 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 935296005906 Flagellar assembly protein FliH; Region: FliH; pfam02108 935296005907 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07960 935296005908 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 935296005909 Walker A motif/ATP binding site; other site 935296005910 Walker B motif; other site 935296005911 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 935296005912 flagellar hook-length control protein; Provisional; Region: PRK10118 935296005913 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 935296005914 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 935296005915 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 935296005916 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 935296005917 flagellar motor switch protein FliN; Validated; Region: fliN; PRK07963 935296005918 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 935296005919 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 935296005920 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 935296005921 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 935296005922 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 935296005923 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 935296005924 conserved cys residue [active] 935296005925 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 935296005926 MAPEG family; Region: MAPEG; pfam01124 935296005927 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296005928 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296005929 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 935296005930 dimerization interface [polypeptide binding]; other site 935296005931 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 935296005932 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296005933 Coenzyme A binding pocket [chemical binding]; other site 935296005934 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 935296005935 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 935296005936 ligand binding site [chemical binding]; other site 935296005937 NAD binding site [chemical binding]; other site 935296005938 dimerization interface [polypeptide binding]; other site 935296005939 catalytic site [active] 935296005940 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 935296005941 Transcriptional regulator [Transcription]; Region: IclR; COG1414 935296005942 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 935296005943 Bacterial transcriptional regulator; Region: IclR; pfam01614 935296005944 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 935296005945 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 935296005946 putative substrate translocation pore; other site 935296005947 benzoate transport; Region: 2A0115; TIGR00895 935296005948 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 935296005949 putative substrate translocation pore; other site 935296005950 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 935296005951 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 935296005952 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 935296005953 putative substrate translocation pore; other site 935296005954 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296005955 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296005956 LysR substrate binding domain; Region: LysR_substrate; pfam03466 935296005957 dimerization interface [polypeptide binding]; other site 935296005958 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 935296005959 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 935296005960 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 935296005961 DNA binding residues [nucleotide binding] 935296005962 putative dimer interface [polypeptide binding]; other site 935296005963 putative metal binding residues [ion binding]; other site 935296005964 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 935296005965 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 935296005966 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 935296005967 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 935296005968 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 935296005969 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 935296005970 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 935296005971 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 935296005972 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 935296005973 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 935296005974 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 935296005975 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 935296005976 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 935296005977 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgF; COG4787 935296005978 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 935296005979 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 935296005980 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 935296005981 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 935296005982 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 935296005983 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 935296005984 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 935296005985 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 935296005986 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 935296005987 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 935296005988 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl19173 935296005989 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 935296005990 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl19173 935296005991 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 935296005992 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 935296005993 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 935296005994 anti-sigma28 factor FlgM; Provisional; Region: PRK10810 935296005995 FlgN protein; Region: FlgN; cl09176 935296005996 Flagellar protein FlhE; Region: FlhE; pfam06366 935296005997 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 935296005998 FlhB HrpN YscU SpaS Family; Region: Bac_export_2; cl19167 935296005999 chemotaxis regulator CheZ; Provisional; Region: PRK11166 935296006000 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 935296006001 active site 935296006002 phosphorylation site [posttranslational modification] 935296006003 intermolecular recognition site; other site 935296006004 dimerization interface [polypeptide binding]; other site 935296006005 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 935296006006 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 935296006007 active site 935296006008 phosphorylation site [posttranslational modification] 935296006009 intermolecular recognition site; other site 935296006010 dimerization interface [polypeptide binding]; other site 935296006011 CheB methylesterase; Region: CheB_methylest; pfam01339 935296006012 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 935296006013 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 935296006014 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 935296006015 methyl-accepting protein IV; Provisional; Region: PRK09793 935296006016 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 935296006017 dimer interface [polypeptide binding]; other site 935296006018 ligand binding site [chemical binding]; other site 935296006019 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 935296006020 dimerization interface [polypeptide binding]; other site 935296006021 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 935296006022 dimer interface [polypeptide binding]; other site 935296006023 putative CheW interface [polypeptide binding]; other site 935296006024 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 935296006025 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 935296006026 dimer interface [polypeptide binding]; other site 935296006027 ligand binding site [chemical binding]; other site 935296006028 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 935296006029 dimerization interface [polypeptide binding]; other site 935296006030 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 935296006031 dimer interface [polypeptide binding]; other site 935296006032 putative CheW interface [polypeptide binding]; other site 935296006033 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 935296006034 putative CheA interaction surface; other site 935296006035 chemotaxis protein CheA; Provisional; Region: PRK10547 935296006036 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 935296006037 putative binding surface; other site 935296006038 active site 935296006039 CheY binding; Region: CheY-binding; pfam09078 935296006040 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 935296006041 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 935296006042 ATP binding site [chemical binding]; other site 935296006043 Mg2+ binding site [ion binding]; other site 935296006044 G-X-G motif; other site 935296006045 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 935296006046 flagellar motor protein MotB; Validated; Region: motB; PRK09041 935296006047 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 935296006048 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 935296006049 ligand binding site [chemical binding]; other site 935296006050 flagellar motor protein MotA; Validated; Region: PRK09110 935296006051 transcriptional activator FlhC; Provisional; Region: PRK12722 935296006052 transcriptional activator FlhD; Provisional; Region: PRK02909 935296006053 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 935296006054 putative substrate binding site [chemical binding]; other site 935296006055 putative ATP binding site [chemical binding]; other site 935296006056 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 935296006057 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 935296006058 active site turn [active] 935296006059 phosphorylation site [posttranslational modification] 935296006060 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 935296006061 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 935296006062 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 935296006063 substrate binding [chemical binding]; other site 935296006064 active site 935296006065 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 935296006066 D-fructose-responsive transcription factor; Region: fruct_sucro_rep; TIGR02417 935296006067 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 935296006068 DNA binding site [nucleotide binding] 935296006069 domain linker motif; other site 935296006070 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 935296006071 dimerization interface [polypeptide binding]; other site 935296006072 ligand binding site [chemical binding]; other site 935296006073 cyanate hydratase; Validated; Region: PRK02866 935296006074 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 935296006075 oligomer interface [polypeptide binding]; other site 935296006076 active site 935296006077 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 935296006078 active site clefts [active] 935296006079 zinc binding site [ion binding]; other site 935296006080 dimer interface [polypeptide binding]; other site 935296006081 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 935296006082 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296006083 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 935296006084 dimerization interface [polypeptide binding]; other site 935296006085 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 935296006086 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 935296006087 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; cl19645 935296006088 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296006089 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296006090 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 935296006091 putative effector binding pocket; other site 935296006092 dimerization interface [polypeptide binding]; other site 935296006093 Colicin M; Region: Colicin_M; pfam14859 935296006094 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 935296006095 Phage-related protein, tail component [Function unknown]; Region: COG4733 935296006096 Putative phage tail protein; Region: Phage-tail_3; pfam13550 935296006097 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 935296006098 Interdomain contacts; other site 935296006099 Cytokine receptor motif; other site 935296006100 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 935296006101 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 935296006102 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 935296006103 Phage-related protein, tail component [Function unknown]; Region: COG4723 935296006104 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 935296006105 MPN+ (JAMM) motif; other site 935296006106 Zinc-binding site [ion binding]; other site 935296006107 NlpC/P60 family; Region: NLPC_P60; pfam00877 935296006108 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 935296006109 Phage minor tail protein L; Region: Phage_tail_L; cl01908 935296006110 Phage minor tail protein; Region: Phage_min_tail; pfam05939 935296006111 Phage-related minor tail protein [Function unknown]; Region: COG5281 935296006112 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 935296006113 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; cl19901 935296006114 Minor tail protein T; Region: Phage_tail_T; cl05636 935296006115 Bacteriophage lambda minor tail protein (GpG); Region: Phage_lambd_GpG; cl06106 935296006116 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 935296006117 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 935296006118 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 935296006119 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 935296006120 DNA packaging protein FI; Region: Packaging_FI; pfam14000 935296006121 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 935296006122 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 935296006123 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 935296006124 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 935296006125 tandem repeat interface [polypeptide binding]; other site 935296006126 oligomer interface [polypeptide binding]; other site 935296006127 active site residues [active] 935296006128 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 935296006129 gpW; Region: gpW; pfam02831 935296006130 Phage terminase, large subunit GpA [Replication, recombination and repair]; Region: COG5525 935296006131 Phage DNA packaging protein Nu1; Region: Phage_Nu1; pfam07471 935296006132 Protein of unknown function (DUF2514); Region: DUF2514; pfam10721 935296006133 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 935296006134 catalytic residues [active] 935296006135 Protein of unknown function (DUF968); Region: DUF968; pfam06147 935296006136 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 935296006137 DinI-like family; Region: DinI; pfam06183 935296006138 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 935296006139 S-adenosylmethionine binding site [chemical binding]; other site 935296006140 Fructosamine kinase; Region: Fructosamin_kin; cl17579 935296006141 Pyocin large subunit [General function prediction only]; Region: COG5529 935296006142 Helix-turn-helix domain; Region: HTH_36; pfam13730 935296006143 primosomal protein DnaI; Provisional; Region: PRK02854 935296006144 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 935296006145 transcriptional repressor DicA; Reviewed; Region: PRK09706 935296006146 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 935296006147 sequence-specific DNA binding site [nucleotide binding]; other site 935296006148 salt bridge; other site 935296006149 exonuclease VIII; Reviewed; Region: PRK09709 935296006150 Enterobacterial exodeoxyribonuclease VIII; Region: Exonuc_VIII; pfam06630 935296006151 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 935296006152 active site 935296006153 catalytic site [active] 935296006154 substrate binding site [chemical binding]; other site 935296006155 Lambda integrase, C-terminal catalytic domain. Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They belong to the superfamily...; Region: INT_Lambda_C; cd00800 935296006156 dimer interface [polypeptide binding]; other site 935296006157 active site 935296006158 Int/Topo IB signature motif; other site 935296006159 putative ABC transporter periplasmic-binding protein; Provisional; Region: PRK09755 935296006160 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 935296006161 peptide binding site [polypeptide binding]; other site 935296006162 YccA-like proteins; Region: YccA_like; cd10433 935296006163 sulfur transfer protein TusE; Provisional; Region: PRK11508 935296006164 acylphosphatase; Provisional; Region: PRK14426 935296006165 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 935296006166 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 935296006167 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 935296006168 putative RNA binding site [nucleotide binding]; other site 935296006169 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 935296006170 S-adenosylmethionine binding site [chemical binding]; other site 935296006171 heat shock protein HspQ; Provisional; Region: PRK14129 935296006172 proteins similar to Escherichia coli yceG; Region: yceG_like; cl18961 935296006173 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 935296006174 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 935296006175 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 935296006176 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 935296006177 HlyD family secretion protein; Region: HlyD_3; pfam13437 935296006178 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 935296006179 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 935296006180 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296006181 Walker A/P-loop; other site 935296006182 ATP binding site [chemical binding]; other site 935296006183 Q-loop/lid; other site 935296006184 ABC transporter signature motif; other site 935296006185 Walker B; other site 935296006186 D-loop; other site 935296006187 H-loop/switch region; other site 935296006188 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 935296006189 Outer membrane efflux protein; Region: OEP; pfam02321 935296006190 Outer membrane efflux protein; Region: OEP; pfam02321 935296006191 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 935296006192 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 935296006193 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 935296006194 active site 935296006195 dimer interfaces [polypeptide binding]; other site 935296006196 catalytic residues [active] 935296006197 DNA helicase IV; Provisional; Region: helD; PRK11054 935296006198 DNA helicase IV / RNA helicase N terminal; Region: Helicase_IV_N; pfam12462 935296006199 Part of AAA domain; Region: AAA_19; pfam13245 935296006200 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 935296006201 Predicted membrane protein [Function unknown]; Region: COG3304 935296006202 Domain of unknown function (DUF307); Region: DUF307; pfam03733 935296006203 Domain of unknown function (DUF307); Region: DUF307; pfam03733 935296006204 TIGR01666 family membrane protein; Region: YCCS 935296006205 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 935296006206 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 935296006207 TfoX N-terminal domain; Region: TfoX_N; pfam04993 935296006208 TfoX C-terminal domain; Region: TfoX_C; pfam04994 935296006209 cell division inhibitor SulA; Region: sula; TIGR00623 935296006210 outer membrane protein A; Reviewed; Region: PRK10808 935296006211 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 935296006212 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 935296006213 ligand binding site [chemical binding]; other site 935296006214 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 935296006215 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 935296006216 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 935296006217 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 935296006218 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 935296006219 active site 2 [active] 935296006220 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 935296006221 paraquat-inducible protein B; Provisional; Region: PRK10807 935296006222 mce related protein; Region: MCE; pfam02470 935296006223 mce related protein; Region: MCE; pfam02470 935296006224 mce related protein; Region: MCE; pfam02470 935296006225 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 935296006226 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 935296006227 Paraquat-inducible protein A; Region: PqiA; pfam04403 935296006228 Paraquat-inducible protein A; Region: PqiA; pfam04403 935296006229 ABC transporter ATPase component; Reviewed; Region: PRK11147 935296006230 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935296006231 ABC transporter; Region: ABC_tran_2; pfam12848 935296006232 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935296006233 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 935296006234 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 935296006235 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 935296006236 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 935296006237 putative RNA binding site [nucleotide binding]; other site 935296006238 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 935296006239 S-adenosylmethionine binding site [chemical binding]; other site 935296006240 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 935296006241 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 935296006242 MOSC domain; Region: MOSC; pfam03473 935296006243 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 935296006244 catalytic loop [active] 935296006245 iron binding site [ion binding]; other site 935296006246 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 935296006247 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 935296006248 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 935296006249 quinone interaction residues [chemical binding]; other site 935296006250 active site 935296006251 catalytic residues [active] 935296006252 FMN binding site [chemical binding]; other site 935296006253 substrate binding site [chemical binding]; other site 935296006254 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 935296006255 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 935296006256 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 935296006257 substrate binding pocket [chemical binding]; other site 935296006258 membrane-bound complex binding site; other site 935296006259 hinge residues; other site 935296006260 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 935296006261 active site 935296006262 dimer interface [polypeptide binding]; other site 935296006263 non-prolyl cis peptide bond; other site 935296006264 insertion regions; other site 935296006265 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 935296006266 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 935296006267 dimer interface [polypeptide binding]; other site 935296006268 conserved gate region; other site 935296006269 putative PBP binding loops; other site 935296006270 ABC-ATPase subunit interface; other site 935296006271 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 935296006272 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 935296006273 Walker A/P-loop; other site 935296006274 ATP binding site [chemical binding]; other site 935296006275 Q-loop/lid; other site 935296006276 ABC transporter signature motif; other site 935296006277 Walker B; other site 935296006278 D-loop; other site 935296006279 H-loop/switch region; other site 935296006280 aminopeptidase N; Provisional; Region: pepN; PRK14015 935296006281 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 935296006282 active site 935296006283 Zn binding site [ion binding]; other site 935296006284 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 935296006285 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 935296006286 active site 935296006287 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 935296006288 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 935296006289 putative dimer interface [polypeptide binding]; other site 935296006290 putative anticodon binding site; other site 935296006291 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 935296006292 homodimer interface [polypeptide binding]; other site 935296006293 motif 1; other site 935296006294 motif 2; other site 935296006295 active site 935296006296 motif 3; other site 935296006297 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 935296006298 trimer interface [polypeptide binding]; other site 935296006299 eyelet of channel; other site 935296006300 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 935296006301 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 935296006302 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296006303 homodimer interface [polypeptide binding]; other site 935296006304 catalytic residue [active] 935296006305 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 935296006306 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 935296006307 Peptidase M15; Region: Peptidase_M15_3; cl01194 935296006308 murein L,D-transpeptidase; Provisional; Region: PRK10594 935296006309 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 935296006310 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 935296006311 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 935296006312 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukB; COG3096 935296006313 P-loop containing region of AAA domain; Region: AAA_29; cl17516 935296006314 HemX; Region: HemX; cl19375 935296006315 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 935296006316 condesin subunit E; Provisional; Region: PRK05256 935296006317 condesin subunit F; Provisional; Region: PRK05260 935296006318 Methyltransferase domain; Region: Methyltransf_31; pfam13847 935296006319 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 935296006320 S-adenosylmethionine binding site [chemical binding]; other site 935296006321 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 935296006322 putative active site [active] 935296006323 hypothetical protein; Provisional; Region: PRK10593 935296006324 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 935296006325 Ligand binding site; other site 935296006326 oligomer interface; other site 935296006327 Trm112p-like protein; Region: Trm112p; cl01066 935296006328 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 935296006329 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 935296006330 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 935296006331 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 935296006332 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 935296006333 Walker A/P-loop; other site 935296006334 ATP binding site [chemical binding]; other site 935296006335 Q-loop/lid; other site 935296006336 ABC transporter signature motif; other site 935296006337 Walker B; other site 935296006338 D-loop; other site 935296006339 H-loop/switch region; other site 935296006340 ComEC family competence protein; Provisional; Region: PRK11539 935296006341 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 935296006342 Competence protein; Region: Competence; pfam03772 935296006343 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 935296006344 Beta subunit of integration host factor (IHFB); Region: IHF_B; cd13836 935296006345 dimer interface [polypeptide binding]; other site 935296006346 DNA binding site [nucleotide binding] 935296006347 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 935296006348 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 935296006349 RNA binding site [nucleotide binding]; other site 935296006350 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 935296006351 RNA binding site [nucleotide binding]; other site 935296006352 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 935296006353 RNA binding site [nucleotide binding]; other site 935296006354 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 935296006355 RNA binding site [nucleotide binding]; other site 935296006356 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 935296006357 RNA binding site [nucleotide binding]; other site 935296006358 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 935296006359 RNA binding site [nucleotide binding]; other site 935296006360 cytidylate kinase; Provisional; Region: cmk; PRK00023 935296006361 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 935296006362 CMP-binding site; other site 935296006363 The sites determining sugar specificity; other site 935296006364 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 935296006365 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 935296006366 hinge; other site 935296006367 active site 935296006368 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 935296006369 homodimer interface [polypeptide binding]; other site 935296006370 substrate-cofactor binding pocket; other site 935296006371 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296006372 catalytic residue [active] 935296006373 uncharacterized domain; Region: TIGR00702 935296006374 Animal heme peroxidases and related proteins; Region: An_peroxidase_like; cl14561 935296006375 formate transporter; Provisional; Region: PRK10805 935296006376 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 935296006377 Pyruvate formate lyase 1; Region: PFL1; cd01678 935296006378 coenzyme A binding site [chemical binding]; other site 935296006379 active site 935296006380 catalytic residues [active] 935296006381 glycine loop; other site 935296006382 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 935296006383 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 935296006384 FeS/SAM binding site; other site 935296006385 putative MFS family transporter protein; Provisional; Region: PRK03633 935296006386 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 935296006387 putative substrate translocation pore; other site 935296006388 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 935296006389 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 935296006390 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 935296006391 anaerobic dimethyl sulfoxide reductase subunit A; Provisional; Region: PRK14990 935296006392 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 935296006393 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 935296006394 putative [Fe4-S4] binding site [ion binding]; other site 935296006395 putative molybdopterin cofactor binding site [chemical binding]; other site 935296006396 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 935296006397 putative molybdopterin cofactor binding site; other site 935296006398 seryl-tRNA synthetase; Provisional; Region: PRK05431 935296006399 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 935296006400 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 935296006401 dimer interface [polypeptide binding]; other site 935296006402 active site 935296006403 motif 1; other site 935296006404 motif 2; other site 935296006405 motif 3; other site 935296006406 recombination factor protein RarA; Reviewed; Region: PRK13342 935296006407 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 935296006408 Walker A motif; other site 935296006409 ATP binding site [chemical binding]; other site 935296006410 Walker B motif; other site 935296006411 arginine finger; other site 935296006412 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 935296006413 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl19192 935296006414 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 935296006415 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 935296006416 DNA translocase FtsK; Provisional; Region: PRK10263 935296006417 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 935296006418 YppG-like protein; Region: YppG; pfam14179 935296006419 Ribosomal L15; Region: Ribosomal_L15e; cl02977 935296006420 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 935296006421 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 935296006422 putative DNA binding site [nucleotide binding]; other site 935296006423 putative Zn2+ binding site [ion binding]; other site 935296006424 AsnC family; Region: AsnC_trans_reg; pfam01037 935296006425 thioredoxin reductase; Provisional; Region: PRK10262 935296006426 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 935296006427 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935296006428 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 935296006429 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 935296006430 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296006431 Walker A/P-loop; other site 935296006432 ATP binding site [chemical binding]; other site 935296006433 Q-loop/lid; other site 935296006434 ABC transporter signature motif; other site 935296006435 Walker B; other site 935296006436 D-loop; other site 935296006437 H-loop/switch region; other site 935296006438 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 935296006439 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 935296006440 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 935296006441 Walker A/P-loop; other site 935296006442 ATP binding site [chemical binding]; other site 935296006443 Q-loop/lid; other site 935296006444 ABC transporter signature motif; other site 935296006445 Walker B; other site 935296006446 D-loop; other site 935296006447 H-loop/switch region; other site 935296006448 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 935296006449 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 935296006450 rRNA binding site [nucleotide binding]; other site 935296006451 predicted 30S ribosome binding site; other site 935296006452 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 935296006453 Clp amino terminal domain; Region: Clp_N; pfam02861 935296006454 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 935296006455 Walker A motif; other site 935296006456 ATP binding site [chemical binding]; other site 935296006457 Walker B motif; other site 935296006458 arginine finger; other site 935296006459 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 935296006460 Walker A motif; other site 935296006461 ATP binding site [chemical binding]; other site 935296006462 Walker B motif; other site 935296006463 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 935296006464 Uncharacterized conserved protein [Function unknown]; Region: COG2127 935296006465 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 935296006466 DNA-binding site [nucleotide binding]; DNA binding site 935296006467 RNA-binding motif; other site 935296006468 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 935296006469 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 935296006470 Walker A/P-loop; other site 935296006471 ATP binding site [chemical binding]; other site 935296006472 Q-loop/lid; other site 935296006473 ABC transporter signature motif; other site 935296006474 Walker B; other site 935296006475 D-loop; other site 935296006476 H-loop/switch region; other site 935296006477 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 935296006478 FtsX-like permease family; Region: FtsX; pfam02687 935296006479 macrolide transporter subunit MacA; Provisional; Region: PRK11578 935296006480 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 935296006481 HlyD family secretion protein; Region: HlyD_3; pfam13437 935296006482 Protein of unknown function (DUF535); Region: DUF535; pfam04393 935296006483 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 935296006484 AAA domain; Region: AAA_21; pfam13304 935296006485 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 935296006486 putative active site [active] 935296006487 putative metal-binding site [ion binding]; other site 935296006488 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 935296006489 amphipathic channel; other site 935296006490 Asn-Pro-Ala signature motifs; other site 935296006491 Predicted membrane protein [Function unknown]; Region: COG2431 935296006492 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 935296006493 cubane metal cluster [ion binding]; other site 935296006494 hybrid metal cluster; other site 935296006495 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 935296006496 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 935296006497 FAD binding pocket [chemical binding]; other site 935296006498 FAD binding motif [chemical binding]; other site 935296006499 phosphate binding motif [ion binding]; other site 935296006500 beta-alpha-beta structure motif; other site 935296006501 NAD binding pocket [chemical binding]; other site 935296006502 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 935296006503 catalytic loop [active] 935296006504 iron binding site [ion binding]; other site 935296006505 Predicted membrane protein [Function unknown]; Region: COG2259 935296006506 pyruvate dehydrogenase; Provisional; Region: PRK09124 935296006507 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 935296006508 PYR/PP interface [polypeptide binding]; other site 935296006509 dimer interface [polypeptide binding]; other site 935296006510 tetramer interface [polypeptide binding]; other site 935296006511 TPP binding site [chemical binding]; other site 935296006512 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 935296006513 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 935296006514 TPP-binding site [chemical binding]; other site 935296006515 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 935296006516 tetramer interface [polypeptide binding]; other site 935296006517 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 935296006518 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296006519 catalytic residue [active] 935296006520 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 935296006521 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 935296006522 putative NAD(P) binding site [chemical binding]; other site 935296006523 putative active site [active] 935296006524 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 935296006525 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 935296006526 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935296006527 NAD(P) binding site [chemical binding]; other site 935296006528 active site 935296006529 WG containing repeat; Region: WG_beta_rep; pfam14903 935296006530 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 935296006531 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 935296006532 amidase catalytic site [active] 935296006533 Zn binding residues [ion binding]; other site 935296006534 substrate binding site [chemical binding]; other site 935296006535 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 935296006536 metal binding site [ion binding]; metal-binding site 935296006537 active site 935296006538 I-site; other site 935296006539 hypothetical protein; Provisional; Region: PRK09929 935296006540 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 935296006541 putative lipoprotein; Provisional; Region: PRK10533 935296006542 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 935296006543 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296006544 Walker A/P-loop; other site 935296006545 ATP binding site [chemical binding]; other site 935296006546 Q-loop/lid; other site 935296006547 ABC transporter signature motif; other site 935296006548 Walker B; other site 935296006549 D-loop; other site 935296006550 H-loop/switch region; other site 935296006551 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 935296006552 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 935296006553 substrate binding pocket [chemical binding]; other site 935296006554 membrane-bound complex binding site; other site 935296006555 hinge residues; other site 935296006556 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 935296006557 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 935296006558 dimer interface [polypeptide binding]; other site 935296006559 conserved gate region; other site 935296006560 putative PBP binding loops; other site 935296006561 ABC-ATPase subunit interface; other site 935296006562 arginine transporter permease subunit ArtM; Provisional; Region: artM; PRK11122 935296006563 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 935296006564 dimer interface [polypeptide binding]; other site 935296006565 conserved gate region; other site 935296006566 putative PBP binding loops; other site 935296006567 ABC-ATPase subunit interface; other site 935296006568 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 935296006569 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 935296006570 substrate binding pocket [chemical binding]; other site 935296006571 membrane-bound complex binding site; other site 935296006572 hinge residues; other site 935296006573 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 935296006574 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 935296006575 dimer interface [polypeptide binding]; other site 935296006576 phosphorylation site [posttranslational modification] 935296006577 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 935296006578 ATP binding site [chemical binding]; other site 935296006579 Mg2+ binding site [ion binding]; other site 935296006580 G-X-G motif; other site 935296006581 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 935296006582 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 935296006583 active site 935296006584 phosphorylation site [posttranslational modification] 935296006585 intermolecular recognition site; other site 935296006586 dimerization interface [polypeptide binding]; other site 935296006587 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 935296006588 DNA binding site [nucleotide binding] 935296006589 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 935296006590 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 935296006591 S-adenosylmethionine binding site [chemical binding]; other site 935296006592 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 935296006593 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 935296006594 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 935296006595 dimer interface [polypeptide binding]; other site 935296006596 conserved gate region; other site 935296006597 putative PBP binding loops; other site 935296006598 ABC-ATPase subunit interface; other site 935296006599 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 935296006600 dimer interface [polypeptide binding]; other site 935296006601 conserved gate region; other site 935296006602 putative PBP binding loops; other site 935296006603 ABC-ATPase subunit interface; other site 935296006604 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 935296006605 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296006606 Walker A/P-loop; other site 935296006607 ATP binding site [chemical binding]; other site 935296006608 Q-loop/lid; other site 935296006609 ABC transporter signature motif; other site 935296006610 Walker B; other site 935296006611 D-loop; other site 935296006612 H-loop/switch region; other site 935296006613 TOBE domain; Region: TOBE_2; pfam08402 935296006614 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 935296006615 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 935296006616 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 935296006617 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 935296006618 RimK-like ATP-grasp domain; Region: RimK; pfam08443 935296006619 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 935296006620 dimer interface [polypeptide binding]; other site 935296006621 FMN binding site [chemical binding]; other site 935296006622 NADPH bind site [chemical binding]; other site 935296006623 Protein of unknown function (DUF1418); Region: DUF1418; pfam07214 935296006624 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 935296006625 GSH binding site [chemical binding]; other site 935296006626 catalytic residues [active] 935296006627 Putative inner membrane protein of Enterobacteriaceae; Region: YbjM; pfam11045 935296006628 putative transporter; Provisional; Region: PRK04972 935296006629 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 935296006630 TrkA-C domain; Region: TrkA_C; pfam02080 935296006631 TrkA-C domain; Region: TrkA_C; pfam02080 935296006632 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 935296006633 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 935296006634 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935296006635 NAD(P) binding site [chemical binding]; other site 935296006636 active site 935296006637 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 935296006638 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935296006639 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 935296006640 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 935296006641 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 935296006642 putative substrate translocation pore; other site 935296006643 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 935296006644 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 935296006645 active site 935296006646 motif I; other site 935296006647 motif II; other site 935296006648 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 935296006649 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 935296006650 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 935296006651 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 935296006652 putative substrate translocation pore; other site 935296006653 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 935296006654 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 935296006655 active site 935296006656 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 935296006657 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 935296006658 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 935296006659 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 935296006660 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 935296006661 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 935296006662 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 935296006663 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 935296006664 putative C-terminal domain interface [polypeptide binding]; other site 935296006665 putative GSH binding site (G-site) [chemical binding]; other site 935296006666 putative dimer interface [polypeptide binding]; other site 935296006667 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 935296006668 N-terminal domain interface [polypeptide binding]; other site 935296006669 dimer interface [polypeptide binding]; other site 935296006670 substrate binding pocket (H-site) [chemical binding]; other site 935296006671 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; cl19645 935296006672 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 935296006673 Biofilm formation protein (YliH/bssR); Region: YliH; cl08211 935296006674 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 935296006675 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 935296006676 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 935296006677 FeS/SAM binding site; other site 935296006678 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 935296006679 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 935296006680 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 935296006681 dimer interface [polypeptide binding]; other site 935296006682 conserved gate region; other site 935296006683 putative PBP binding loops; other site 935296006684 ABC-ATPase subunit interface; other site 935296006685 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 935296006686 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 935296006687 dimer interface [polypeptide binding]; other site 935296006688 conserved gate region; other site 935296006689 putative PBP binding loops; other site 935296006690 ABC-ATPase subunit interface; other site 935296006691 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 935296006692 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 935296006693 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 935296006694 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935296006695 Walker A/P-loop; other site 935296006696 ATP binding site [chemical binding]; other site 935296006697 Q-loop/lid; other site 935296006698 ABC transporter signature motif; other site 935296006699 Walker B; other site 935296006700 D-loop; other site 935296006701 H-loop/switch region; other site 935296006702 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 935296006703 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935296006704 Walker A/P-loop; other site 935296006705 ATP binding site [chemical binding]; other site 935296006706 Q-loop/lid; other site 935296006707 ABC transporter signature motif; other site 935296006708 Walker B; other site 935296006709 D-loop; other site 935296006710 H-loop/switch region; other site 935296006711 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 935296006712 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 935296006713 catalytic nucleophile [active] 935296006714 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 935296006715 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 935296006716 dimer interface [polypeptide binding]; other site 935296006717 putative functional site; other site 935296006718 putative MPT binding site; other site 935296006719 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 935296006720 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 935296006721 ATP binding site [chemical binding]; other site 935296006722 substrate interface [chemical binding]; other site 935296006723 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 935296006724 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 935296006725 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 935296006726 FeS/SAM binding site; other site 935296006727 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 935296006728 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 935296006729 dimer interface [polypeptide binding]; other site 935296006730 active site 935296006731 glycine loop; other site 935296006732 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 935296006733 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 935296006734 active site 935296006735 motif I; other site 935296006736 motif II; other site 935296006737 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 935296006738 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 935296006739 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 935296006740 DNA binding site [nucleotide binding] 935296006741 Transcriptional regulators [Transcription]; Region: PurR; COG1609 935296006742 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 935296006743 ligand binding site [chemical binding]; other site 935296006744 dimerization interface [polypeptide binding]; other site 935296006745 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 935296006746 D-galactonate transporter; Region: 2A0114; TIGR00893 935296006747 putative substrate translocation pore; other site 935296006748 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 935296006749 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 935296006750 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 935296006751 putative active site [active] 935296006752 putative catalytic site [active] 935296006753 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 935296006754 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935296006755 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296006756 Walker A/P-loop; other site 935296006757 ATP binding site [chemical binding]; other site 935296006758 ABC transporter signature motif; other site 935296006759 Walker B; other site 935296006760 ABC transporter; Region: ABC_tran_2; pfam12848 935296006761 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935296006762 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 935296006763 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 935296006764 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 935296006765 L,D-transpeptidase; Provisional; Region: PRK10260 935296006766 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 935296006767 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 935296006768 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935296006769 DNA-binding site [nucleotide binding]; DNA binding site 935296006770 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 935296006771 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 935296006772 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 935296006773 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 935296006774 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 935296006775 active site 935296006776 catalytic tetrad [active] 935296006777 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 935296006778 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 935296006779 transmembrane helices; other site 935296006780 manganese transport regulator MntR; Provisional; Region: PRK11050 935296006781 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 935296006782 Iron dependent repressor, metal binding and dimerization domain; Region: Fe_dep_repr_C; pfam02742 935296006783 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 935296006784 Sulfatase; Region: Sulfatase; pfam00884 935296006785 outer membrane protein X; Provisional; Region: ompX; PRK09408 935296006786 threonine and homoserine efflux system; Provisional; Region: PRK10532 935296006787 EamA-like transporter family; Region: EamA; pfam00892 935296006788 Ferritin-like domain; Region: Ferritin; pfam00210 935296006789 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 935296006790 dimerization interface [polypeptide binding]; other site 935296006791 DPS ferroxidase diiron center [ion binding]; other site 935296006792 ion pore; other site 935296006793 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 935296006794 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 935296006795 substrate binding pocket [chemical binding]; other site 935296006796 membrane-bound complex binding site; other site 935296006797 hinge residues; other site 935296006798 glutamine ABC transporter permease protein; Reviewed; Region: glnP; PRK09494 935296006799 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 935296006800 dimer interface [polypeptide binding]; other site 935296006801 conserved gate region; other site 935296006802 putative PBP binding loops; other site 935296006803 ABC-ATPase subunit interface; other site 935296006804 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 935296006805 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 935296006806 Walker A/P-loop; other site 935296006807 ATP binding site [chemical binding]; other site 935296006808 Q-loop/lid; other site 935296006809 ABC transporter signature motif; other site 935296006810 Walker B; other site 935296006811 D-loop; other site 935296006812 H-loop/switch region; other site 935296006813 putative mechanosensitive channel protein; Provisional; Region: PRK11465 935296006814 Mechanosensitive ion channel; Region: MS_channel; pfam00924 935296006815 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 935296006816 S-adenosylmethionine binding site [chemical binding]; other site 935296006817 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 935296006818 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 935296006819 hypothetical protein; Provisional; Region: PRK11019 935296006820 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 935296006821 glycosyl transferase family protein; Provisional; Region: PRK08136 935296006822 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 935296006823 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 935296006824 active site 935296006825 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 935296006826 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 935296006827 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 935296006828 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 935296006829 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 935296006830 ATP binding site [chemical binding]; other site 935296006831 Mg++ binding site [ion binding]; other site 935296006832 motif III; other site 935296006833 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 935296006834 nucleotide binding region [chemical binding]; other site 935296006835 ATP-binding site [chemical binding]; other site 935296006836 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 935296006837 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935296006838 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 935296006839 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 935296006840 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 935296006841 HlyD family secretion protein; Region: HlyD_3; pfam13437 935296006842 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 935296006843 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 935296006844 Q-loop/lid; other site 935296006845 ABC transporter signature motif; other site 935296006846 Walker B; other site 935296006847 D-loop; other site 935296006848 H-loop/switch region; other site 935296006849 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 935296006850 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 935296006851 Walker A/P-loop; other site 935296006852 ATP binding site [chemical binding]; other site 935296006853 Q-loop/lid; other site 935296006854 ABC transporter signature motif; other site 935296006855 Walker B; other site 935296006856 D-loop; other site 935296006857 H-loop/switch region; other site 935296006858 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 935296006859 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 935296006860 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 935296006861 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 935296006862 Putative inner membrane protein YbhQ; Region: YbhQ; pfam11076 935296006863 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 935296006864 putative catalytic site [active] 935296006865 putative metal binding site [ion binding]; other site 935296006866 putative phosphate binding site [ion binding]; other site 935296006867 cardiolipin synthase 2; Provisional; Region: PRK11263 935296006868 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 935296006869 putative active site [active] 935296006870 catalytic site [active] 935296006871 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 935296006872 putative active site [active] 935296006873 catalytic site [active] 935296006874 Predicted integral membrane protein [Function unknown]; Region: COG0392 935296006875 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 935296006876 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 935296006877 MoaE homodimer interface [polypeptide binding]; other site 935296006878 MoaD interaction [polypeptide binding]; other site 935296006879 active site residues [active] 935296006880 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 935296006881 MoaE interaction surface [polypeptide binding]; other site 935296006882 MoeB interaction surface [polypeptide binding]; other site 935296006883 thiocarboxylated glycine; other site 935296006884 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 935296006885 trimer interface [polypeptide binding]; other site 935296006886 dimer interface [polypeptide binding]; other site 935296006887 putative active site [active] 935296006888 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 935296006889 MPT binding site; other site 935296006890 trimer interface [polypeptide binding]; other site 935296006891 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 935296006892 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 935296006893 FeS/SAM binding site; other site 935296006894 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 935296006895 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 935296006896 phosphate binding site [ion binding]; other site 935296006897 putative substrate binding pocket [chemical binding]; other site 935296006898 dimer interface [polypeptide binding]; other site 935296006899 putative metal dependent hydrolase; Provisional; Region: PRK11598 935296006900 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 935296006901 Sulfatase; Region: Sulfatase; pfam00884 935296006902 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 935296006903 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 935296006904 active site 935296006905 phosphorylation site [posttranslational modification] 935296006906 intermolecular recognition site; other site 935296006907 dimerization interface [polypeptide binding]; other site 935296006908 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 935296006909 DNA binding site [nucleotide binding] 935296006910 sensor protein BasS/PmrB; Provisional; Region: PRK10755 935296006911 HAMP domain; Region: HAMP; pfam00672 935296006912 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 935296006913 dimer interface [polypeptide binding]; other site 935296006914 phosphorylation site [posttranslational modification] 935296006915 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 935296006916 ATP binding site [chemical binding]; other site 935296006917 Mg2+ binding site [ion binding]; other site 935296006918 G-X-G motif; other site 935296006919 excinuclease ABC subunit B; Provisional; Region: PRK05298 935296006920 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 935296006921 ATP binding site [chemical binding]; other site 935296006922 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 935296006923 nucleotide binding region [chemical binding]; other site 935296006924 ATP-binding site [chemical binding]; other site 935296006925 Ultra-violet resistance protein B; Region: UvrB; pfam12344 935296006926 UvrB/uvrC motif; Region: UVR; pfam02151 935296006927 AAA domain; Region: AAA_26; pfam13500 935296006928 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 935296006929 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 935296006930 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 935296006931 S-adenosylmethionine binding site [chemical binding]; other site 935296006932 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 935296006933 8-amino-7-oxononanoate synthase; Region: bioF; TIGR00858 935296006934 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 935296006935 catalytic residue [active] 935296006936 biotin synthase; Provisional; Region: PRK15108 935296006937 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 935296006938 FeS/SAM binding site; other site 935296006939 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 935296006940 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 935296006941 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 935296006942 inhibitor-cofactor binding pocket; inhibition site 935296006943 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296006944 catalytic residue [active] 935296006945 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 935296006946 substrate binding site [chemical binding]; other site 935296006947 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 935296006948 Aromatic amino acid lyase; Region: Lyase_aromatic; pfam00221 935296006949 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 935296006950 active sites [active] 935296006951 tetramer interface [polypeptide binding]; other site 935296006952 urocanate hydratase; Provisional; Region: PRK05414 935296006953 histidine utilization repressor; Provisional; Region: PRK14999 935296006954 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935296006955 DNA-binding site [nucleotide binding]; DNA binding site 935296006956 UTRA domain; Region: UTRA; pfam07702 935296006957 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 935296006958 putative active site [active] 935296006959 putative metal binding site [ion binding]; other site 935296006960 imidazolonepropionase; Validated; Region: PRK09356 935296006961 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 935296006962 active site 935296006963 acyl-CoA thioesterase; Provisional; Region: PRK10531 935296006964 Pectinesterase; Region: Pectinesterase; cl01911 935296006965 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 935296006966 binding surface 935296006967 TPR motif; other site 935296006968 Tetratricopeptide repeat; Region: TPR_16; pfam13432 935296006969 Tetratricopeptide repeat; Region: TPR_19; pfam14559 935296006970 RNA polymerase sigma factor; Provisional; Region: PRK12511 935296006971 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 935296006972 DNA binding residues [nucleotide binding] 935296006973 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 935296006974 Lipocalin-like domain; Region: Lipocalin_2; cl19222 935296006975 Putative biofilm-dependent modulation protein; Region: BDM; cl11581 935296006976 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 935296006977 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 935296006978 DNA binding residues [nucleotide binding] 935296006979 dimerization interface [polypeptide binding]; other site 935296006980 transcriptional regulator MirA; Provisional; Region: PRK15043 935296006981 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 935296006982 DNA binding residues [nucleotide binding] 935296006983 Sensors of blue-light using FAD; Region: BLUF; smart01034 935296006984 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 935296006985 Biofilm development protein YmgB/AriR; Region: YmgB; pfam10798 935296006986 6-phosphogluconolactonase; Provisional; Region: PRK11028 935296006987 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; cd00200 935296006988 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 935296006989 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 935296006990 active site 935296006991 motif I; other site 935296006992 motif II; other site 935296006993 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 935296006994 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296006995 Walker A/P-loop; other site 935296006996 ATP binding site [chemical binding]; other site 935296006997 Q-loop/lid; other site 935296006998 ABC transporter signature motif; other site 935296006999 Walker B; other site 935296007000 D-loop; other site 935296007001 H-loop/switch region; other site 935296007002 TOBE domain; Region: TOBE; cl01440 935296007003 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 935296007004 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 935296007005 dimer interface [polypeptide binding]; other site 935296007006 conserved gate region; other site 935296007007 putative PBP binding loops; other site 935296007008 ABC-ATPase subunit interface; other site 935296007009 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 935296007010 substrate binding pocket [chemical binding]; other site 935296007011 membrane-bound complex binding site; other site 935296007012 hinge residues; other site 935296007013 Protein of unknown function (DUF2592); Region: DUF2592; pfam10766 935296007014 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 935296007015 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 935296007016 molybdenum-pterin binding domain; Region: Mop; TIGR00638 935296007017 TOBE domain; Region: TOBE; pfam03459 935296007018 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 935296007019 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296007020 Walker A/P-loop; other site 935296007021 ATP binding site [chemical binding]; other site 935296007022 Q-loop/lid; other site 935296007023 ABC transporter signature motif; other site 935296007024 Walker B; other site 935296007025 D-loop; other site 935296007026 H-loop/switch region; other site 935296007027 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296007028 Walker A/P-loop; other site 935296007029 ATP binding site [chemical binding]; other site 935296007030 Q-loop/lid; other site 935296007031 ABC transporter signature motif; other site 935296007032 Walker B; other site 935296007033 D-loop; other site 935296007034 H-loop/switch region; other site 935296007035 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 935296007036 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 935296007037 NAD binding site [chemical binding]; other site 935296007038 homodimer interface [polypeptide binding]; other site 935296007039 active site 935296007040 substrate binding site [chemical binding]; other site 935296007041 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 935296007042 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 935296007043 dimer interface [polypeptide binding]; other site 935296007044 active site 935296007045 galactokinase; Provisional; Region: PRK05101 935296007046 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 935296007047 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 935296007048 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 935296007049 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 935296007050 active site 935296007051 catalytic residues [active] 935296007052 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 935296007053 catalytic core [active] 935296007054 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 935296007055 YbgS-like protein; Region: YbgS; pfam13985 935296007056 zinc transporter ZitB; Provisional; Region: PRK03557 935296007057 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 935296007058 quinolinate synthetase; Provisional; Region: PRK09375 935296007059 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 935296007060 Tetratricopeptide repeat; Region: TPR_6; pfam13174 935296007061 Tetratricopeptide repeat; Region: TPR_6; pfam13174 935296007062 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 935296007063 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 935296007064 ligand binding site [chemical binding]; other site 935296007065 translocation protein TolB; Provisional; Region: tolB; PRK03629 935296007066 TolB amino-terminal domain; Region: TolB_N; pfam04052 935296007067 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 935296007068 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 935296007069 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 935296007070 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 935296007071 TolA C-terminal; Region: TolA; pfam06519 935296007072 colicin uptake protein TolR; Provisional; Region: PRK11024 935296007073 colicin uptake protein TolQ; Provisional; Region: PRK10801 935296007074 hypothetical protein; Provisional; Region: PRK10588 935296007075 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 935296007076 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003 935296007077 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 935296007078 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 935296007079 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 935296007080 CoA binding domain; Region: CoA_binding; pfam02629 935296007081 CoA-ligase; Region: Ligase_CoA; pfam00549 935296007082 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 935296007083 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 935296007084 CoA-ligase; Region: Ligase_CoA; pfam00549 935296007085 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 935296007086 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 935296007087 E3 interaction surface; other site 935296007088 lipoyl attachment site [posttranslational modification]; other site 935296007089 e3 binding domain; Region: E3_binding; pfam02817 935296007090 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 935296007091 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 935296007092 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 935296007093 TPP-binding site [chemical binding]; other site 935296007094 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 935296007095 dimer interface [polypeptide binding]; other site 935296007096 PYR/PP interface [polypeptide binding]; other site 935296007097 TPP binding site [chemical binding]; other site 935296007098 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 935296007099 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 935296007100 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 935296007101 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 935296007102 L-aspartate oxidase; Provisional; Region: PRK06175 935296007103 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 935296007104 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 935296007105 SdhC subunit interface [polypeptide binding]; other site 935296007106 proximal heme binding site [chemical binding]; other site 935296007107 cardiolipin binding site; other site 935296007108 Iron-sulfur protein interface; other site 935296007109 proximal quinone binding site [chemical binding]; other site 935296007110 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 935296007111 SdhD (CybS) interface [polypeptide binding]; other site 935296007112 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 935296007113 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 935296007114 dimer interface [polypeptide binding]; other site 935296007115 active site 935296007116 citrylCoA binding site [chemical binding]; other site 935296007117 NADH binding [chemical binding]; other site 935296007118 cationic pore residues; other site 935296007119 oxalacetate/citrate binding site [chemical binding]; other site 935296007120 coenzyme A binding site [chemical binding]; other site 935296007121 catalytic triad [active] 935296007122 endonuclease VIII; Provisional; Region: PRK10445 935296007123 N-terminal domain of Escherichia coli Nei/endonuclease VIII and related DNA glycosylases; Region: EcNei-like_N; cd08965 935296007124 DNA binding site [nucleotide binding] 935296007125 catalytic residue [active] 935296007126 putative catalytic residues [active] 935296007127 H2TH interface [polypeptide binding]; other site 935296007128 intercalation triad [nucleotide binding]; other site 935296007129 substrate specificity determining residue; other site 935296007130 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 935296007131 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 935296007132 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 935296007133 putative substrate binding pocket [chemical binding]; other site 935296007134 AC domain interface; other site 935296007135 catalytic triad [active] 935296007136 AB domain interface; other site 935296007137 interchain disulfide; other site 935296007138 Protein of unknown function (DUF979); Region: DUF979; pfam06166 935296007139 Protein of unknown function (DUF969); Region: DUF969; pfam06149 935296007140 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 935296007141 putative active site [active] 935296007142 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 935296007143 Allophanate hydrolase subunit 1; Region: AHS1; cl19310 935296007144 metal-binding protein; Provisional; Region: PRK10799 935296007145 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 935296007146 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 935296007147 putative substrate translocation pore; other site 935296007148 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 935296007149 DNA photolyase; Region: DNA_photolyase; pfam00875 935296007150 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 935296007151 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 935296007152 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 935296007153 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 935296007154 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 935296007155 Soluble P-type ATPase [General function prediction only]; Region: COG4087 935296007156 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 935296007157 sensor protein KdpD; Provisional; Region: PRK10490 935296007158 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 935296007159 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 935296007160 Ligand Binding Site [chemical binding]; other site 935296007161 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 935296007162 GAF domain; Region: GAF_3; pfam13492 935296007163 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 935296007164 dimer interface [polypeptide binding]; other site 935296007165 phosphorylation site [posttranslational modification] 935296007166 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 935296007167 ATP binding site [chemical binding]; other site 935296007168 Mg2+ binding site [ion binding]; other site 935296007169 G-X-G motif; other site 935296007170 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 935296007171 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 935296007172 active site 935296007173 phosphorylation site [posttranslational modification] 935296007174 intermolecular recognition site; other site 935296007175 dimerization interface [polypeptide binding]; other site 935296007176 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 935296007177 DNA binding site [nucleotide binding] 935296007178 phosphoglucomutase, alpha-D-glucose phosphate-specific; Region: pgm; TIGR01132 935296007179 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 935296007180 active site 935296007181 substrate binding site [chemical binding]; other site 935296007182 metal binding site [ion binding]; metal-binding site 935296007183 replication initiation regulator SeqA; Provisional; Region: PRK11187 935296007184 acyl-CoA esterase; Provisional; Region: PRK10673 935296007185 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 935296007186 LexA regulated protein; Provisional; Region: PRK11675 935296007187 flavodoxin FldA; Validated; Region: PRK09267 935296007188 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 935296007189 metal binding site 2 [ion binding]; metal-binding site 935296007190 putative DNA binding helix; other site 935296007191 metal binding site 1 [ion binding]; metal-binding site 935296007192 dimer interface [polypeptide binding]; other site 935296007193 structural Zn2+ binding site [ion binding]; other site 935296007194 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 935296007195 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296007196 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 935296007197 dimerization interface [polypeptide binding]; other site 935296007198 tricarballylate dehydrogenase; Validated; Region: PRK08274 935296007199 precorrin 3B synthase CobZ; Region: CobZ_N-term; TIGR02485 935296007200 tricarballylate utilization protein B; Provisional; Region: PRK15033 935296007201 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 935296007202 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 935296007203 citrate-proton symporter; Provisional; Region: PRK15075 935296007204 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 935296007205 putative substrate translocation pore; other site 935296007206 YbfN-like lipoprotein; Region: YbfN; pfam13982 935296007207 outer membrane porin, OprD family; Region: OprD; pfam03573 935296007208 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 935296007209 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 935296007210 active site 935296007211 HIGH motif; other site 935296007212 KMSKS motif; other site 935296007213 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 935296007214 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 935296007215 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 935296007216 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 935296007217 active site turn [active] 935296007218 phosphorylation site [posttranslational modification] 935296007219 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 935296007220 HPr interaction site; other site 935296007221 glycerol kinase (GK) interaction site [polypeptide binding]; other site 935296007222 active site 935296007223 phosphorylation site [posttranslational modification] 935296007224 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 935296007225 active site 935296007226 trimer interface [polypeptide binding]; other site 935296007227 allosteric site; other site 935296007228 active site lid [active] 935296007229 hexamer (dimer of trimers) interface [polypeptide binding]; other site 935296007230 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 935296007231 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 935296007232 active site 935296007233 dimer interface [polypeptide binding]; other site 935296007234 MarR family; Region: MarR_2; cl17246 935296007235 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 935296007236 ROK family; Region: ROK; pfam00480 935296007237 UMP phosphatase; Provisional; Region: PRK10444 935296007238 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 935296007239 active site 935296007240 motif I; other site 935296007241 motif II; other site 935296007242 asparagine synthetase B; Provisional; Region: asnB; PRK09431 935296007243 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 935296007244 active site 935296007245 dimer interface [polypeptide binding]; other site 935296007246 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 935296007247 Ligand Binding Site [chemical binding]; other site 935296007248 Molecular Tunnel; other site 935296007249 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 935296007250 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 935296007251 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 935296007252 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 935296007253 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 935296007254 FeS/SAM binding site; other site 935296007255 TRAM domain; Region: TRAM; pfam01938 935296007256 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 935296007257 PhoH-like protein; Region: PhoH; pfam02562 935296007258 metal-binding heat shock protein; Provisional; Region: PRK00016 935296007259 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 935296007260 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 935296007261 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 935296007262 Transporter associated domain; Region: CorC_HlyC; smart01091 935296007263 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 935296007264 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 935296007265 putative active site [active] 935296007266 catalytic triad [active] 935296007267 putative dimer interface [polypeptide binding]; other site 935296007268 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 935296007269 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 935296007270 substrate binding pocket [chemical binding]; other site 935296007271 membrane-bound complex binding site; other site 935296007272 hinge residues; other site 935296007273 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 935296007274 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 935296007275 dimer interface [polypeptide binding]; other site 935296007276 conserved gate region; other site 935296007277 putative PBP binding loops; other site 935296007278 ABC-ATPase subunit interface; other site 935296007279 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 935296007280 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 935296007281 dimer interface [polypeptide binding]; other site 935296007282 conserved gate region; other site 935296007283 putative PBP binding loops; other site 935296007284 ABC-ATPase subunit interface; other site 935296007285 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 935296007286 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 935296007287 Walker A/P-loop; other site 935296007288 ATP binding site [chemical binding]; other site 935296007289 Q-loop/lid; other site 935296007290 ABC transporter signature motif; other site 935296007291 Walker B; other site 935296007292 D-loop; other site 935296007293 H-loop/switch region; other site 935296007294 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 935296007295 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 935296007296 haemagglutination activity domain; Region: Haemagg_act; pfam05860 935296007297 hypothetical protein; Provisional; Region: PRK11032 935296007298 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 935296007299 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 935296007300 active site 935296007301 HIGH motif; other site 935296007302 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 935296007303 KMSKS motif; other site 935296007304 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 935296007305 tRNA binding surface [nucleotide binding]; other site 935296007306 LPS-assembly lipoprotein RlpB; Provisional; Region: PRK10796 935296007307 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 935296007308 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 935296007309 Processivity clamp loader gamma complex DNA pol III C-term; Region: DNA_pol3_delt_C; pfam14840 935296007310 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 935296007311 active site 935296007312 (T/H)XGH motif; other site 935296007313 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 935296007314 catalytic core [active] 935296007315 ribosome-associated protein; Provisional; Region: PRK11538 935296007316 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 935296007317 penicillin-binding protein 2; Provisional; Region: PRK10795 935296007318 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 935296007319 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 935296007320 cell wall shape-determining protein; Provisional; Region: PRK10794 935296007321 rare lipoprotein A; Provisional; Region: PRK10672 935296007322 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 935296007323 Sporulation related domain; Region: SPOR; pfam05036 935296007324 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 935296007325 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 935296007326 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 935296007327 hypothetical protein; Provisional; Region: PRK04998 935296007328 lipoate-protein ligase B; Provisional; Region: PRK14342 935296007329 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 935296007330 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296007331 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 935296007332 dimerization interface [polypeptide binding]; other site 935296007333 lipoyl synthase; Provisional; Region: PRK05481 935296007334 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 935296007335 FeS/SAM binding site; other site 935296007336 twin arginine translocase protein E; Validated; Region: tatE; PRK03625 935296007337 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 935296007338 putative active site [active] 935296007339 catalytic triad [active] 935296007340 putative dimer interface [polypeptide binding]; other site 935296007341 chromosome condensation membrane protein; Provisional; Region: PRK14196 935296007342 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 935296007343 DNA-binding site [nucleotide binding]; DNA binding site 935296007344 RNA-binding motif; other site 935296007345 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 935296007346 C4-dicarboxylate transporter DcuC; Provisional; Region: dcuC; PRK10654 935296007347 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 935296007348 ribonuclease I; Provisional; Region: PRK10095 935296007349 CAS motifs; other site 935296007350 active site 935296007351 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 935296007352 Rnk N-terminus; Region: Rnk_N; pfam14760 935296007353 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 935296007354 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 935296007355 Ligand Binding Site [chemical binding]; other site 935296007356 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 935296007357 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 935296007358 catalytic residue [active] 935296007359 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 935296007360 catalytic residues [active] 935296007361 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 935296007362 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935296007363 alkyl hydroperoxide reductase subunit C; Provisional; Region: PRK10382 935296007364 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 935296007365 dimer interface [polypeptide binding]; other site 935296007366 decamer (pentamer of dimers) interface [polypeptide binding]; other site 935296007367 catalytic triad [active] 935296007368 peroxidatic and resolving cysteines [active] 935296007369 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 935296007370 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 935296007371 dimerization domain [polypeptide binding]; other site 935296007372 dimer interface [polypeptide binding]; other site 935296007373 catalytic residues [active] 935296007374 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296007375 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296007376 LysR substrate binding domain; Region: LysR_substrate; pfam03466 935296007377 dimerization interface [polypeptide binding]; other site 935296007378 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 935296007379 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 935296007380 Active Sites [active] 935296007381 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 935296007382 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 935296007383 ParB-like nuclease domain; Region: ParBc; pfam02195 935296007384 methionine aminotransferase; Validated; Region: PRK09082 935296007385 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 935296007386 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296007387 homodimer interface [polypeptide binding]; other site 935296007388 catalytic residue [active] 935296007389 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 935296007390 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 935296007391 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 935296007392 motif II; other site 935296007393 Cupin domain; Region: Cupin_2; cl17218 935296007394 methylthioribulose-1-phosphate dehydratase; Provisional; Region: PRK09220 935296007395 intersubunit interface [polypeptide binding]; other site 935296007396 active site 935296007397 Zn2+ binding site [ion binding]; other site 935296007398 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 935296007399 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 935296007400 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 935296007401 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 935296007402 putative ligand binding site [chemical binding]; other site 935296007403 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 935296007404 TM-ABC transporter signature motif; other site 935296007405 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 935296007406 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 935296007407 Walker A/P-loop; other site 935296007408 ATP binding site [chemical binding]; other site 935296007409 Q-loop/lid; other site 935296007410 ABC transporter signature motif; other site 935296007411 Walker B; other site 935296007412 D-loop; other site 935296007413 H-loop/switch region; other site 935296007414 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 935296007415 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 935296007416 classical (c) SDRs; Region: SDR_c; cd05233 935296007417 NAD(P) binding site [chemical binding]; other site 935296007418 active site 935296007419 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 935296007420 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 935296007421 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 935296007422 salt bridge; other site 935296007423 non-specific DNA binding site [nucleotide binding]; other site 935296007424 sequence-specific DNA binding site [nucleotide binding]; other site 935296007425 Uncharacterized small protein [Function unknown]; Region: COG2879 935296007426 carbon starvation protein A; Provisional; Region: PRK15015 935296007427 Carbon starvation protein CstA; Region: CstA; pfam02554 935296007428 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 935296007429 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 935296007430 CoenzymeA binding site [chemical binding]; other site 935296007431 subunit interaction site [polypeptide binding]; other site 935296007432 PHB binding site; other site 935296007433 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 935296007434 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 935296007435 putative NAD(P) binding site [chemical binding]; other site 935296007436 active site 935296007437 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 935296007438 hydrophobic substrate binding pocket; other site 935296007439 active site 935296007440 conserved cis-peptide bond; other site 935296007441 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 935296007442 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 935296007443 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 935296007444 acyl-activating enzyme (AAE) consensus motif; other site 935296007445 active site 935296007446 AMP binding site [chemical binding]; other site 935296007447 substrate binding site [chemical binding]; other site 935296007448 isochorismate synthase EntC; Provisional; Region: PRK15016 935296007449 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 935296007450 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 935296007451 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 935296007452 siderophore binding site; other site 935296007453 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 935296007454 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 935296007455 active site 935296007456 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 935296007457 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 935296007458 aromatic chitin/cellulose binding site residues [chemical binding]; other site 935296007459 enterobactin exporter EntS; Provisional; Region: PRK10489 935296007460 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 935296007461 putative substrate translocation pore; other site 935296007462 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 935296007463 ABC-ATPase subunit interface; other site 935296007464 dimer interface [polypeptide binding]; other site 935296007465 putative PBP binding regions; other site 935296007466 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 935296007467 ABC-ATPase subunit interface; other site 935296007468 dimer interface [polypeptide binding]; other site 935296007469 putative PBP binding regions; other site 935296007470 iron-enterobactin transporter ATP-binding protein; Provisional; Region: PRK10253 935296007471 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 935296007472 Walker A/P-loop; other site 935296007473 ATP binding site [chemical binding]; other site 935296007474 Q-loop/lid; other site 935296007475 ABC transporter signature motif; other site 935296007476 Walker B; other site 935296007477 D-loop; other site 935296007478 H-loop/switch region; other site 935296007479 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 935296007480 Condensation domain; Region: Condensation; cl19241 935296007481 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 935296007482 acyl-activating enzyme (AAE) consensus motif; other site 935296007483 AMP binding site [chemical binding]; other site 935296007484 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 935296007485 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 935296007486 MbtH-like protein; Region: MbtH; cl01279 935296007487 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 935296007488 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 935296007489 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819; cl19187 935296007490 outer membrane receptor FepA; Provisional; Region: PRK13524 935296007491 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 935296007492 N-terminal plug; other site 935296007493 ligand-binding site [chemical binding]; other site 935296007494 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 935296007495 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 935296007496 PYR/PP interface [polypeptide binding]; other site 935296007497 dimer interface [polypeptide binding]; other site 935296007498 TPP binding site [chemical binding]; other site 935296007499 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 935296007500 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 935296007501 TPP-binding site [chemical binding]; other site 935296007502 dimer interface [polypeptide binding]; other site 935296007503 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 935296007504 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 935296007505 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 935296007506 bacterial glycerol kinase 2-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GK2_bacteria; cd07791 935296007507 N- and C-terminal domain interface [polypeptide binding]; other site 935296007508 active site 935296007509 MgATP binding site [chemical binding]; other site 935296007510 catalytic site [active] 935296007511 metal binding site [ion binding]; metal-binding site 935296007512 putative homotetramer interface [polypeptide binding]; other site 935296007513 putative homodimer interface [polypeptide binding]; other site 935296007514 glycerol binding site [chemical binding]; other site 935296007515 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 935296007516 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 935296007517 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; cl02395 935296007518 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 935296007519 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 935296007520 Walker A/P-loop; other site 935296007521 ATP binding site [chemical binding]; other site 935296007522 Q-loop/lid; other site 935296007523 ABC transporter signature motif; other site 935296007524 Walker B; other site 935296007525 D-loop; other site 935296007526 H-loop/switch region; other site 935296007527 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 935296007528 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 935296007529 TM-ABC transporter signature motif; other site 935296007530 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 935296007531 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935296007532 NAD(P) binding site [chemical binding]; other site 935296007533 active site 935296007534 short chain dehydrogenase; Provisional; Region: PRK06114 935296007535 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935296007536 NAD(P) binding site [chemical binding]; other site 935296007537 active site 935296007538 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 935296007539 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 935296007540 substrate binding site [chemical binding]; other site 935296007541 THF binding site; other site 935296007542 zinc-binding site [ion binding]; other site 935296007543 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 935296007544 choline transport protein BetT; Provisional; Region: PRK09928 935296007545 transcriptional regulator BetI; Validated; Region: PRK00767 935296007546 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935296007547 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 935296007548 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 935296007549 tetrameric interface [polypeptide binding]; other site 935296007550 NAD binding site [chemical binding]; other site 935296007551 catalytic residues [active] 935296007552 choline dehydrogenase; Validated; Region: PRK02106 935296007553 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 935296007554 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 935296007555 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 935296007556 Predicted periplasmic protein (DUF2233); Region: DUF2233; cl19845 935296007557 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 935296007558 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 935296007559 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 935296007560 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 935296007561 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 935296007562 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 935296007563 Protein of unknown function (DUF1158); Region: DUF1158; pfam06643 935296007564 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 935296007565 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296007566 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296007567 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 935296007568 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 935296007569 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935296007570 hypothetical protein; Provisional; Region: PRK10250 935296007571 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 935296007572 dimer interface [polypeptide binding]; other site 935296007573 FMN binding site [chemical binding]; other site 935296007574 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 935296007575 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 935296007576 salt bridge; other site 935296007577 non-specific DNA binding site [nucleotide binding]; other site 935296007578 sequence-specific DNA binding site [nucleotide binding]; other site 935296007579 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 935296007580 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935296007581 putative substrate translocation pore; other site 935296007582 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 935296007583 Mechanosensitive ion channel; Region: MS_channel; pfam00924 935296007584 phenylalanine transporter; Provisional; Region: PRK10249 935296007585 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 935296007586 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 935296007587 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 935296007588 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 935296007589 N-terminal plug; other site 935296007590 ligand-binding site [chemical binding]; other site 935296007591 PQQ-like domain; Region: PQQ_2; pfam13360 935296007592 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 935296007593 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 935296007594 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935296007595 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 935296007596 NAD(P) binding site [chemical binding]; other site 935296007597 catalytic residues [active] 935296007598 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 935296007599 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 935296007600 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 935296007601 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 935296007602 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 935296007603 Protein of unknown function (DUF3156); Region: DUF3156; pfam11354 935296007604 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 935296007605 active site 935296007606 Zn binding site [ion binding]; other site 935296007607 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935296007608 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 935296007609 putative substrate translocation pore; other site 935296007610 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 935296007611 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 935296007612 DNA binding residues [nucleotide binding] 935296007613 dimerization interface [polypeptide binding]; other site 935296007614 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 935296007615 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 935296007616 FeS/SAM binding site; other site 935296007617 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 935296007618 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 935296007619 Sulfatase; Region: Sulfatase; pfam00884 935296007620 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 935296007621 classical (c) SDRs; Region: SDR_c; cd05233 935296007622 NAD(P) binding site [chemical binding]; other site 935296007623 active site 935296007624 Molybdenum cofactor biosynthesis protein F; Region: MoaF; pfam10703 935296007625 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 935296007626 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 935296007627 active site 935296007628 catalytic tetrad [active] 935296007629 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 935296007630 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 935296007631 substrate binding pocket [chemical binding]; other site 935296007632 membrane-bound complex binding site; other site 935296007633 hinge residues; other site 935296007634 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 935296007635 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 935296007636 metal binding site [ion binding]; metal-binding site 935296007637 putative dimer interface [polypeptide binding]; other site 935296007638 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cl01109 935296007639 putative amphipathic alpha helix; other site 935296007640 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 935296007641 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 935296007642 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 935296007643 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 935296007644 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 935296007645 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 935296007646 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 935296007647 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 935296007648 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296007649 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 935296007650 dimerization interface [polypeptide binding]; other site 935296007651 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 935296007652 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 935296007653 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 935296007654 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 935296007655 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 935296007656 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 935296007657 CoA binding domain; Region: CoA_binding; pfam02629 935296007658 CoA-ligase; Region: Ligase_CoA; pfam00549 935296007659 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 935296007660 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 935296007661 putative substrate binding site [chemical binding]; other site 935296007662 nucleotide binding site [chemical binding]; other site 935296007663 nucleotide binding site [chemical binding]; other site 935296007664 homodimer interface [polypeptide binding]; other site 935296007665 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 935296007666 cytosine deaminase; Provisional; Region: PRK05985 935296007667 active site 935296007668 lysyl-tRNA synthetase; Reviewed; Region: PRK12445 935296007669 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 935296007670 dimer interface [polypeptide binding]; other site 935296007671 putative anticodon binding site; other site 935296007672 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 935296007673 motif 1; other site 935296007674 active site 935296007675 motif 2; other site 935296007676 motif 3; other site 935296007677 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 935296007678 POT family; Region: PTR2; cl17359 935296007679 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 935296007680 putative substrate translocation pore; other site 935296007681 lysine decarboxylase CadA; Provisional; Region: PRK15400 935296007682 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 935296007683 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 935296007684 homodimer interface [polypeptide binding]; other site 935296007685 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296007686 catalytic residue [active] 935296007687 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 935296007688 lysine/cadaverine antiporter; Provisional; Region: cadB; PRK10435 935296007689 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 935296007690 DNA-binding transcriptional activator CadC; Provisional; Region: PRK10153 935296007691 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 935296007692 DNA binding site [nucleotide binding] 935296007693 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 935296007694 FMN binding site [chemical binding]; other site 935296007695 active site 935296007696 substrate binding site [chemical binding]; other site 935296007697 catalytic residue [active] 935296007698 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 935296007699 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 935296007700 putative acyl-acceptor binding pocket; other site 935296007701 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 935296007702 Putative lysophospholipase; Region: Hydrolase_4; cl19140 935296007703 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 935296007704 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296007705 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 935296007706 Coenzyme A binding pocket [chemical binding]; other site 935296007707 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296007708 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296007709 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 935296007710 putative dimerization interface [polypeptide binding]; other site 935296007711 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 935296007712 citrate-proton symporter; Provisional; Region: PRK15075 935296007713 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 935296007714 putative substrate translocation pore; other site 935296007715 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 935296007716 2-keto-3-deoxygluconate permease; Provisional; Region: PRK05274 935296007717 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 935296007718 active site 935296007719 homotetramer interface [polypeptide binding]; other site 935296007720 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 935296007721 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 935296007722 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 935296007723 homodimer interface [polypeptide binding]; other site 935296007724 NADP binding site [chemical binding]; other site 935296007725 substrate binding site [chemical binding]; other site 935296007726 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 935296007727 RNA binding surface [nucleotide binding]; other site 935296007728 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 935296007729 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 935296007730 active site 935296007731 HIGH motif; other site 935296007732 KMSKS motif; other site 935296007733 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 935296007734 tRNA binding surface [nucleotide binding]; other site 935296007735 anticodon binding site; other site 935296007736 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 935296007737 substrate binding site [chemical binding]; other site 935296007738 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 935296007739 putative active site [active] 935296007740 putative metal binding site [ion binding]; other site 935296007741 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 935296007742 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 935296007743 ATP-grasp domain; Region: ATP-grasp; pfam02222 935296007744 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 935296007745 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 935296007746 active site residue [active] 935296007747 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 935296007748 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 935296007749 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 935296007750 FtsX-like permease family; Region: FtsX; pfam02687 935296007751 FtsX-like permease family; Region: FtsX; pfam02687 935296007752 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 935296007753 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 935296007754 Walker A/P-loop; other site 935296007755 ATP binding site [chemical binding]; other site 935296007756 Q-loop/lid; other site 935296007757 ABC transporter signature motif; other site 935296007758 Walker B; other site 935296007759 D-loop; other site 935296007760 H-loop/switch region; other site 935296007761 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 935296007762 active site 935296007763 catalytic triad [active] 935296007764 oxyanion hole [active] 935296007765 switch loop; other site 935296007766 short chain dehydrogenase; Validated; Region: PRK06182 935296007767 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 935296007768 NADP binding site [chemical binding]; other site 935296007769 active site 935296007770 steroid binding site; other site 935296007771 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 935296007772 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 935296007773 Tetratricopeptide repeat; Region: TPR_20; pfam14561 935296007774 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 935296007775 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 935296007776 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296007777 Walker A/P-loop; other site 935296007778 ATP binding site [chemical binding]; other site 935296007779 Q-loop/lid; other site 935296007780 ABC transporter signature motif; other site 935296007781 Walker B; other site 935296007782 D-loop; other site 935296007783 H-loop/switch region; other site 935296007784 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 935296007785 Paraslipin or slipin-2 (SLP-2, a subgroup of the stomatin-like proteins (slipins) family; belonging to the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_paraslipin; cd08829 935296007786 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 935296007787 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 935296007788 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 935296007789 DNA binding residues [nucleotide binding] 935296007790 dimer interface [polypeptide binding]; other site 935296007791 copper binding site [ion binding]; other site 935296007792 copper exporting ATPase; Provisional; Region: copA; PRK10671 935296007793 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 935296007794 metal-binding site [ion binding] 935296007795 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 935296007796 metal-binding site [ion binding] 935296007797 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 935296007798 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 935296007799 motif II; other site 935296007800 TraB family; Region: TraB; cl12050 935296007801 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 935296007802 putative deacylase active site [active] 935296007803 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 935296007804 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 935296007805 active site 935296007806 metal binding site [ion binding]; metal-binding site 935296007807 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 935296007808 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 935296007809 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935296007810 putative substrate translocation pore; other site 935296007811 putative cation:proton antiport protein; Provisional; Region: PRK10669 935296007812 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 935296007813 TrkA-N domain; Region: TrkA_N; pfam02254 935296007814 inosine/guanosine kinase; Provisional; Region: PRK15074 935296007815 substrate binding site [chemical binding]; other site 935296007816 ATP binding site [chemical binding]; other site 935296007817 ferrochelatase; Reviewed; Region: hemH; PRK00035 935296007818 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 935296007819 C-terminal domain interface [polypeptide binding]; other site 935296007820 active site 935296007821 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 935296007822 active site 935296007823 N-terminal domain interface [polypeptide binding]; other site 935296007824 adenylate kinase; Reviewed; Region: adk; PRK00279 935296007825 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 935296007826 AMP-binding site [chemical binding]; other site 935296007827 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 935296007828 heat shock protein 90; Provisional; Region: PRK05218 935296007829 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 935296007830 ATP binding site [chemical binding]; other site 935296007831 Mg2+ binding site [ion binding]; other site 935296007832 G-X-G motif; other site 935296007833 Hsp90 protein; Region: HSP90; pfam00183 935296007834 recombination protein RecR; Reviewed; Region: recR; PRK00076 935296007835 RecR protein; Region: RecR; pfam02132 935296007836 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 935296007837 putative active site [active] 935296007838 putative metal-binding site [ion binding]; other site 935296007839 tetramer interface [polypeptide binding]; other site 935296007840 hypothetical protein; Validated; Region: PRK00153 935296007841 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 935296007842 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 935296007843 Walker A motif; other site 935296007844 ATP binding site [chemical binding]; other site 935296007845 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; cl18944 935296007846 Walker B motif; other site 935296007847 arginine finger; other site 935296007848 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 935296007849 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 935296007850 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 935296007851 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935296007852 active site 935296007853 hypothetical protein; Provisional; Region: PRK10527 935296007854 primosomal replication protein N''; Provisional; Region: PRK10093 935296007855 hypothetical protein; Provisional; Region: PRK11038 935296007856 hypothetical protein; Provisional; Region: PRK11281 935296007857 Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits...; Region: Prefoldin; cl09111 935296007858 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 935296007859 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 935296007860 Mechanosensitive ion channel; Region: MS_channel; pfam00924 935296007861 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 935296007862 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 935296007863 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 935296007864 HlyD family secretion protein; Region: HlyD_3; pfam13437 935296007865 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 935296007866 MMPL family; Region: MMPL; cl14618 935296007867 MMPL family; Region: MMPL; cl14618 935296007868 Hha toxicity attenuator; Provisional; Region: PRK10667 935296007869 gene expression modulator; Provisional; Region: PRK10945 935296007870 maltose O-acetyltransferase; Provisional; Region: PRK10092 935296007871 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 935296007872 active site 935296007873 substrate binding site [chemical binding]; other site 935296007874 trimer interface [polypeptide binding]; other site 935296007875 CoA binding site [chemical binding]; other site 935296007876 Inner membrane protein YlaC; Region: YlaC; pfam10777 935296007877 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 935296007878 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935296007879 DNA-binding site [nucleotide binding]; DNA binding site 935296007880 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 935296007881 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296007882 homodimer interface [polypeptide binding]; other site 935296007883 catalytic residue [active] 935296007884 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 935296007885 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 935296007886 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 935296007887 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 935296007888 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 935296007889 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 935296007890 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 935296007891 Protein of unknown function (DUF1428); Region: DUF1428; cl02319 935296007892 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 935296007893 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 935296007894 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 935296007895 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935296007896 DNA-binding site [nucleotide binding]; DNA binding site 935296007897 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 935296007898 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296007899 homodimer interface [polypeptide binding]; other site 935296007900 catalytic residue [active] 935296007901 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 935296007902 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 935296007903 DNA binding site [nucleotide binding] 935296007904 active site 935296007905 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 935296007906 acyl-CoA thioesterase II; Provisional; Region: PRK10526 935296007907 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 935296007908 active site 935296007909 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 935296007910 catalytic triad [active] 935296007911 dimer interface [polypeptide binding]; other site 935296007912 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 935296007913 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296007914 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 935296007915 dimerization interface [polypeptide binding]; other site 935296007916 substrate binding pocket [chemical binding]; other site 935296007917 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 935296007918 ammonium transporter; Provisional; Region: PRK10666 935296007919 nitrogen regulatory protein P-II 2; Provisional; Region: PRK10665 935296007920 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 935296007921 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 935296007922 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296007923 Walker A/P-loop; other site 935296007924 ATP binding site [chemical binding]; other site 935296007925 Q-loop/lid; other site 935296007926 ABC transporter signature motif; other site 935296007927 Walker B; other site 935296007928 D-loop; other site 935296007929 H-loop/switch region; other site 935296007930 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 935296007931 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 935296007932 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296007933 Walker A/P-loop; other site 935296007934 ATP binding site [chemical binding]; other site 935296007935 Q-loop/lid; other site 935296007936 ABC transporter signature motif; other site 935296007937 Walker B; other site 935296007938 D-loop; other site 935296007939 H-loop/switch region; other site 935296007940 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 935296007941 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 935296007942 putative DNA binding site [nucleotide binding]; other site 935296007943 putative Zn2+ binding site [ion binding]; other site 935296007944 AsnC family; Region: AsnC_trans_reg; pfam01037 935296007945 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 935296007946 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 935296007947 catalytic residue [active] 935296007948 thiamin pyrimidine pyrophosphate hydrolase; Provisional; Region: PRK15126 935296007949 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 935296007950 active site 935296007951 motif I; other site 935296007952 motif II; other site 935296007953 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 935296007954 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 935296007955 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 935296007956 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 935296007957 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 935296007958 Ligand Binding Site [chemical binding]; other site 935296007959 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 935296007960 active site 935296007961 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 935296007962 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 935296007963 periplasmic folding chaperone; Provisional; Region: PRK10788 935296007964 SurA N-terminal domain; Region: SurA_N_3; cl07813 935296007965 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 935296007966 histone-like DNA-binding protein HU; Region: HU; cd13831 935296007967 dimer interface [polypeptide binding]; other site 935296007968 DNA binding site [nucleotide binding] 935296007969 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 935296007970 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 935296007971 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 935296007972 Walker A motif; other site 935296007973 ATP binding site [chemical binding]; other site 935296007974 Walker B motif; other site 935296007975 arginine finger; other site 935296007976 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 935296007977 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 935296007978 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 935296007979 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 935296007980 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 935296007981 Walker A motif; other site 935296007982 ATP binding site [chemical binding]; other site 935296007983 Walker B motif; other site 935296007984 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 935296007985 oligomer interface [polypeptide binding]; other site 935296007986 active site residues [active] 935296007987 trigger factor; Provisional; Region: tig; PRK01490 935296007988 Bacterial trigger factor protein (TF); Region: Trigger_N; pfam05697 935296007989 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 935296007990 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 935296007991 transcriptional regulator BolA; Provisional; Region: PRK11628 935296007992 hypothetical protein; Provisional; Region: PRK11627 935296007993 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 935296007994 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935296007995 putative substrate translocation pore; other site 935296007996 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 935296007997 The cupredoxin domain of Ubiquinol oxidase subunit II; Region: CuRO_UO_II; cd04212 935296007998 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 935296007999 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 935296008000 cytochrome o ubiquinol oxidase, subunit I; Region: CyoB; TIGR02843 935296008001 cytochrome o ubiquinol oxidase subunit I; Provisional; Region: PRK15017 935296008002 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 935296008003 Subunit I/III interface [polypeptide binding]; other site 935296008004 Subunit III/IV interface [polypeptide binding]; other site 935296008005 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 935296008006 Protoheme IX farnesyltransferase; Region: PT_UbiA_Cox10; cd13957 935296008007 putative active site [active] 935296008008 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 935296008009 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935296008010 putative substrate translocation pore; other site 935296008011 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 935296008012 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 935296008013 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 935296008014 FtsX-like permease family; Region: FtsX; pfam02687 935296008015 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 935296008016 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 935296008017 Walker A/P-loop; other site 935296008018 ATP binding site [chemical binding]; other site 935296008019 Q-loop/lid; other site 935296008020 ABC transporter signature motif; other site 935296008021 Walker B; other site 935296008022 D-loop; other site 935296008023 H-loop/switch region; other site 935296008024 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 935296008025 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 935296008026 active site 935296008027 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 935296008028 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 935296008029 dimer interface [polypeptide binding]; other site 935296008030 active site 935296008031 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 935296008032 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 935296008033 active site 935296008034 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 935296008035 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 935296008036 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 935296008037 Phosphopantetheine attachment site; Region: PP-binding; cl09936 935296008038 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 935296008039 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935296008040 NAD(P) binding site [chemical binding]; other site 935296008041 active site 935296008042 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 935296008043 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 935296008044 haemagglutination activity domain; Region: Haemagg_act; pfam05860 935296008045 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 935296008046 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 935296008047 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 935296008048 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 935296008049 oxidative-stress-resistance chaperone; Provisional; Region: PRK11574 935296008050 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 935296008051 conserved cys residue [active] 935296008052 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 935296008053 putative hydrophobic ligand binding site [chemical binding]; other site 935296008054 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 935296008055 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 935296008056 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 935296008057 Ligand Binding Site [chemical binding]; other site 935296008058 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 935296008059 active site residue [active] 935296008060 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 935296008061 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 935296008062 substrate binding pocket [chemical binding]; other site 935296008063 chain length determination region; other site 935296008064 active site lid residues [active] 935296008065 substrate-Mg2+ binding site; other site 935296008066 catalytic residues [active] 935296008067 aspartate-rich region 1; other site 935296008068 aspartate-rich region 2; other site 935296008069 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 935296008070 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 935296008071 TPP-binding site; other site 935296008072 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 935296008073 PYR/PP interface [polypeptide binding]; other site 935296008074 dimer interface [polypeptide binding]; other site 935296008075 TPP binding site [chemical binding]; other site 935296008076 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 935296008077 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 935296008078 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 935296008079 active site 935296008080 catalytic tetrad [active] 935296008081 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 935296008082 tetramer interfaces [polypeptide binding]; other site 935296008083 binuclear metal-binding site [ion binding]; other site 935296008084 thiamine monophosphate kinase; Provisional; Region: PRK05731 935296008085 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 935296008086 ATP binding site [chemical binding]; other site 935296008087 dimerization interface [polypeptide binding]; other site 935296008088 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 935296008089 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 935296008090 homopentamer interface [polypeptide binding]; other site 935296008091 active site 935296008092 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 935296008093 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 935296008094 catalytic motif [active] 935296008095 Zn binding site [ion binding]; other site 935296008096 riboflavin-specific deaminase C-terminal domain; Region: ribD_Cterm; TIGR00227 935296008097 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 935296008098 ATP cone domain; Region: ATP-cone; pfam03477 935296008099 hypothetical protein; Provisional; Region: PRK11530 935296008100 nucleoside-specific channel-forming protein Tsx; Provisional; Region: PRK15106 935296008101 Predicted transcriptional regulator [Transcription]; Region: COG2378 935296008102 HTH domain; Region: HTH_11; pfam08279 935296008103 WYL domain; Region: WYL; pfam13280 935296008104 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 935296008105 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 935296008106 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 935296008107 Protein export membrane protein; Region: SecD_SecF; pfam02355 935296008108 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 935296008109 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 935296008110 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 935296008111 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 935296008112 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 935296008113 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 935296008114 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 935296008115 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 935296008116 Protein of unknown function, DUF479; Region: DUF479; cl01203 935296008117 peroxidase; Provisional; Region: PRK15000 935296008118 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 935296008119 dimer interface [polypeptide binding]; other site 935296008120 decamer (pentamer of dimers) interface [polypeptide binding]; other site 935296008121 catalytic triad [active] 935296008122 peroxidatic and resolving cysteines [active] 935296008123 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 935296008124 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 935296008125 active site 935296008126 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 935296008127 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 935296008128 catalytic triad [active] 935296008129 dimer interface [polypeptide binding]; other site 935296008130 conserved cis-peptide bond; other site 935296008131 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296008132 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 935296008133 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 935296008134 dimerization interface [polypeptide binding]; other site 935296008135 maltodextrin glucosidase; Provisional; Region: PRK10785 935296008136 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 935296008137 homodimer interface [polypeptide binding]; other site 935296008138 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 935296008139 active site 935296008140 homodimer interface [polypeptide binding]; other site 935296008141 catalytic site [active] 935296008142 putative proline-specific permease; Provisional; Region: proY; PRK10580 935296008143 Spore germination protein; Region: Spore_permease; cl17796 935296008144 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 935296008145 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 935296008146 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 935296008147 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 935296008148 putative active site [active] 935296008149 heme pocket [chemical binding]; other site 935296008150 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 935296008151 dimer interface [polypeptide binding]; other site 935296008152 phosphorylation site [posttranslational modification] 935296008153 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 935296008154 ATP binding site [chemical binding]; other site 935296008155 Mg2+ binding site [ion binding]; other site 935296008156 G-X-G motif; other site 935296008157 transcriptional regulator PhoB; Provisional; Region: PRK10161 935296008158 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 935296008159 active site 935296008160 phosphorylation site [posttranslational modification] 935296008161 intermolecular recognition site; other site 935296008162 dimerization interface [polypeptide binding]; other site 935296008163 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 935296008164 DNA binding site [nucleotide binding] 935296008165 exonuclease subunit SbcD; Provisional; Region: PRK10966 935296008166 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 935296008167 active site 935296008168 metal binding site [ion binding]; metal-binding site 935296008169 DNA binding site [nucleotide binding] 935296008170 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 935296008171 exonuclease subunit SbcC; Provisional; Region: PRK10246 935296008172 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296008173 Walker A/P-loop; other site 935296008174 ATP binding site [chemical binding]; other site 935296008175 Q-loop/lid; other site 935296008176 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296008177 ABC transporter signature motif; other site 935296008178 Walker B; other site 935296008179 D-loop; other site 935296008180 H-loop/switch region; other site 935296008181 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 935296008182 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 935296008183 nucleotide binding site [chemical binding]; other site 935296008184 butyrate kinase; Region: butyr_kinase; TIGR02707 935296008185 DNA recombination-dependent growth factor C [DNA replication, recombination, and repair]; Region: RdgC; COG2974 935296008186 hypothetical protein; Provisional; Region: PRK10579 935296008187 hypothetical protein; Provisional; Region: PRK10481 935296008188 hypothetical protein; Provisional; Region: PRK10380 935296008189 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 935296008190 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 935296008191 ADP binding site [chemical binding]; other site 935296008192 magnesium binding site [ion binding]; other site 935296008193 putative shikimate binding site; other site 935296008194 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 935296008195 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3416 935296008196 hypothetical protein; Validated; Region: PRK00124 935296008197 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 935296008198 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 935296008199 Pyrroline-5-carboxylate reductase dimerization; Region: P5CR_dimer; pfam14748 935296008200 hypothetical protein; Provisional; Region: PRK11505 935296008201 psiF repeat; Region: PsiF_repeat; pfam07769 935296008202 psiF repeat; Region: PsiF_repeat; pfam07769 935296008203 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 935296008204 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 935296008205 active site 935296008206 dimer interface [polypeptide binding]; other site 935296008207 anti-RssB factor; Provisional; Region: PRK10244 935296008208 drug efflux system protein MdtG; Provisional; Region: PRK09874 935296008209 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 935296008210 putative substrate translocation pore; other site 935296008211 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 935296008212 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 935296008213 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 935296008214 Protein of unknown function (DUF2754); Region: DUF2754; pfam10953 935296008215 Protein of unknown function (DUF2755); Region: DUF2755; pfam10954 935296008216 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 935296008217 microcin B17 transporter; Reviewed; Region: PRK11098 935296008218 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 935296008219 catalytic triad [active] 935296008220 conserved cis-peptide bond; other site 935296008221 beta-lactam binding protein AmpH; Provisional; Region: PRK10662 935296008222 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 935296008223 dimer interface [polypeptide binding]; other site 935296008224 active site 935296008225 Schiff base residues; other site 935296008226 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 935296008227 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 935296008228 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 935296008229 metal binding site [ion binding]; metal-binding site 935296008230 dimer interface [polypeptide binding]; other site 935296008231 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935296008232 active site 935296008233 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 935296008234 Putative lysophospholipase; Region: Hydrolase_4; cl19140 935296008235 DNA-binding transcriptional regulator Crl; Provisional; Region: PRK10984 935296008236 putative acyl transferase; Provisional; Region: PRK10191 935296008237 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 935296008238 trimer interface [polypeptide binding]; other site 935296008239 active site 935296008240 substrate binding site [chemical binding]; other site 935296008241 CoA binding site [chemical binding]; other site 935296008242 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 935296008243 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 935296008244 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_6; cd04955 935296008245 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 935296008246 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 935296008247 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 935296008248 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 935296008249 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 935296008250 active site 935296008251 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 935296008252 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 935296008253 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 935296008254 Chain length determinant protein; Region: Wzz; pfam02706 935296008255 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 935296008256 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 935296008257 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 935296008258 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 935296008259 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 935296008260 SLBB domain; Region: SLBB; pfam10531 935296008261 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl19246 935296008262 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 935296008263 CoA-binding domain; Region: CoA_binding_3; pfam13727 935296008264 Bacterial sugar transferase; Region: Bac_transf; pfam02397 935296008265 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 935296008266 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 935296008267 putative hydrophobic ligand binding site [chemical binding]; other site 935296008268 protein interface [polypeptide binding]; other site 935296008269 gate; other site 935296008270 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 935296008271 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935296008272 NAD(P) binding site [chemical binding]; other site 935296008273 active site 935296008274 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 935296008275 active site 935296008276 catalytic tetrad [active] 935296008277 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 935296008278 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296008279 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 935296008280 dimerization interface [polypeptide binding]; other site 935296008281 substrate binding pocket [chemical binding]; other site 935296008282 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 935296008283 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 935296008284 helix_turn_helix gluconate operon transcriptional repressor; Region: HTH_GNTR; smart00345 935296008285 DNA-binding site [nucleotide binding]; DNA binding site 935296008286 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 935296008287 gamma-aminobutyrate transporter; Provisional; Region: PRK10197 935296008288 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 935296008289 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 935296008290 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 935296008291 inhibitor-cofactor binding pocket; inhibition site 935296008292 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296008293 catalytic residue [active] 935296008294 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 935296008295 tetramerization interface [polypeptide binding]; other site 935296008296 NAD(P) binding site [chemical binding]; other site 935296008297 catalytic residues [active] 935296008298 hydroxyglutarate oxidase; Provisional; Region: PRK11728 935296008299 Predicted dehydrogenase [General function prediction only]; Region: COG0579 935296008300 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cd00250 935296008301 substrate binding pocket [chemical binding]; other site 935296008302 active site 935296008303 iron coordination sites [ion binding]; other site 935296008304 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 935296008305 Fimbrial protein; Region: Fimbrial; pfam00419 935296008306 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 935296008307 PapC N-terminal domain; Region: PapC_N; pfam13954 935296008308 Outer membrane usher protein; Region: Usher; pfam00577 935296008309 PapC C-terminal domain; Region: PapC_C; pfam13953 935296008310 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 935296008311 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 935296008312 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 935296008313 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 935296008314 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 935296008315 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296008316 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 935296008317 dimerization interface [polypeptide binding]; other site 935296008318 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 935296008319 Protein of unknown function (DUF1493); Region: DUF1493; pfam07377 935296008320 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 935296008321 putative catalytic cysteine [active] 935296008322 gamma-glutamyl kinase; Provisional; Region: PRK05429 935296008323 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 935296008324 nucleotide binding site [chemical binding]; other site 935296008325 homotetrameric interface [polypeptide binding]; other site 935296008326 putative phosphate binding site [ion binding]; other site 935296008327 putative allosteric binding site; other site 935296008328 PUA domain; Region: PUA; pfam01472 935296008329 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 935296008330 trimer interface [polypeptide binding]; other site 935296008331 eyelet of channel; other site 935296008332 NlpC/P60 family; Region: NLPC_P60; pfam00877 935296008333 Cupin domain; Region: Cupin_2; cl17218 935296008334 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 935296008335 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 935296008336 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296008337 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 935296008338 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 935296008339 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 935296008340 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 935296008341 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 935296008342 dimer interface [polypeptide binding]; other site 935296008343 conserved gate region; other site 935296008344 putative PBP binding loops; other site 935296008345 ABC-ATPase subunit interface; other site 935296008346 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 935296008347 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 935296008348 dimer interface [polypeptide binding]; other site 935296008349 conserved gate region; other site 935296008350 putative PBP binding loops; other site 935296008351 ABC-ATPase subunit interface; other site 935296008352 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 935296008353 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 935296008354 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 935296008355 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 935296008356 Walker A/P-loop; other site 935296008357 ATP binding site [chemical binding]; other site 935296008358 Q-loop/lid; other site 935296008359 ABC transporter signature motif; other site 935296008360 Walker B; other site 935296008361 D-loop; other site 935296008362 H-loop/switch region; other site 935296008363 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 935296008364 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 935296008365 DNA binding residues [nucleotide binding] 935296008366 putative fimbrial protein TcfA; Provisional; Region: PRK15308 935296008367 Outer membrane usher protein; Region: Usher; pfam00577 935296008368 Domain of unknown function (DUF4480); Region: DUF4480; pfam13715 935296008369 putative fimbrial protein TcfA; Provisional; Region: PRK15308 935296008370 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 935296008371 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 935296008372 metal binding site [ion binding]; metal-binding site 935296008373 dimer interface [polypeptide binding]; other site 935296008374 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 935296008375 D-galactonate transporter; Region: 2A0114; TIGR00893 935296008376 putative substrate translocation pore; other site 935296008377 DNA-binding transcriptional activator TdcA; Provisional; Region: PRK10341 935296008378 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296008379 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 935296008380 dimerization interface [polypeptide binding]; other site 935296008381 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 935296008382 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 935296008383 dimer interface [polypeptide binding]; other site 935296008384 conserved gate region; other site 935296008385 putative PBP binding loops; other site 935296008386 ABC-ATPase subunit interface; other site 935296008387 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 935296008388 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 935296008389 dimer interface [polypeptide binding]; other site 935296008390 conserved gate region; other site 935296008391 putative PBP binding loops; other site 935296008392 ABC-ATPase subunit interface; other site 935296008393 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 935296008394 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 935296008395 Walker A/P-loop; other site 935296008396 ATP binding site [chemical binding]; other site 935296008397 Q-loop/lid; other site 935296008398 ABC transporter signature motif; other site 935296008399 Walker B; other site 935296008400 D-loop; other site 935296008401 H-loop/switch region; other site 935296008402 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 935296008403 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 935296008404 substrate binding pocket [chemical binding]; other site 935296008405 membrane-bound complex binding site; other site 935296008406 hinge residues; other site 935296008407 SCP1.201-like deaminase; Region: SCP1201-deam; pfam14428 935296008408 S-methylmethionine transporter; Provisional; Region: PRK11387 935296008409 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 935296008410 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 935296008411 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 935296008412 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 935296008413 substrate binding pocket [chemical binding]; other site 935296008414 membrane-bound complex binding site; other site 935296008415 hinge residues; other site 935296008416 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 935296008417 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 935296008418 Walker A/P-loop; other site 935296008419 ATP binding site [chemical binding]; other site 935296008420 Q-loop/lid; other site 935296008421 ABC transporter signature motif; other site 935296008422 Walker B; other site 935296008423 D-loop; other site 935296008424 H-loop/switch region; other site 935296008425 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 935296008426 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 935296008427 dimer interface [polypeptide binding]; other site 935296008428 conserved gate region; other site 935296008429 putative PBP binding loops; other site 935296008430 ABC-ATPase subunit interface; other site 935296008431 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 935296008432 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 935296008433 active site 935296008434 iron coordination sites [ion binding]; other site 935296008435 substrate binding pocket [chemical binding]; other site 935296008436 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 935296008437 putative acyl-acceptor binding pocket; other site 935296008438 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 935296008439 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 935296008440 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296008441 Coenzyme A binding pocket [chemical binding]; other site 935296008442 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 935296008443 active site 935296008444 DNA polymerase IV; Validated; Region: PRK02406 935296008445 DNA binding site [nucleotide binding] 935296008446 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 935296008447 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 935296008448 active site 935296008449 catalytic site [active] 935296008450 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 935296008451 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 935296008452 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 935296008453 FAD binding pocket [chemical binding]; other site 935296008454 FAD binding motif [chemical binding]; other site 935296008455 phosphate binding motif [ion binding]; other site 935296008456 beta-alpha-beta structure motif; other site 935296008457 NAD binding pocket [chemical binding]; other site 935296008458 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 935296008459 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 935296008460 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 935296008461 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 935296008462 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 935296008463 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 935296008464 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 935296008465 lipoyl-biotinyl attachment site [posttranslational modification]; other site 935296008466 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 935296008467 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 935296008468 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 935296008469 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 935296008470 putative active site [active] 935296008471 Glutamine amidotransferases class-II; Region: GATase_2; pfam00310 935296008472 putative dimer interface [polypeptide binding]; other site 935296008473 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 935296008474 dimer interface [polypeptide binding]; other site 935296008475 active site 935296008476 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 935296008477 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 935296008478 active site 935296008479 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 935296008480 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 935296008481 putative active site [active] 935296008482 catalytic triad [active] 935296008483 dimer interface [polypeptide binding]; other site 935296008484 multimer interface [polypeptide binding]; other site 935296008485 LysE type translocator; Region: LysE; cl00565 935296008486 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296008487 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296008488 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 935296008489 dimerization interface [polypeptide binding]; other site 935296008490 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 935296008491 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 935296008492 active site 935296008493 catalytic site [active] 935296008494 substrate binding site [chemical binding]; other site 935296008495 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 935296008496 RNA/DNA hybrid binding site [nucleotide binding]; other site 935296008497 active site 935296008498 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 935296008499 hydroxyacylglutathione hydrolase; Provisional; Region: PRK10241 935296008500 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 935296008501 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 935296008502 N-acetyl-D-glucosamine binding site [chemical binding]; other site 935296008503 catalytic residue [active] 935296008504 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 935296008505 ATP binding site [chemical binding]; other site 935296008506 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 935296008507 substrate binding site [chemical binding]; other site 935296008508 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 935296008509 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 935296008510 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 935296008511 hypothetical protein; Provisional; Region: PRK08317 935296008512 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 935296008513 S-adenosylmethionine binding site [chemical binding]; other site 935296008514 hypothetical protein; Provisional; Region: PRK05421 935296008515 putative catalytic site [active] 935296008516 putative metal binding site [ion binding]; other site 935296008517 putative phosphate binding site [ion binding]; other site 935296008518 putative catalytic site [active] 935296008519 putative phosphate binding site [ion binding]; other site 935296008520 putative metal binding site [ion binding]; other site 935296008521 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 935296008522 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 935296008523 putative substrate translocation pore; other site 935296008524 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296008525 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296008526 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 935296008527 putative effector binding pocket; other site 935296008528 dimerization interface [polypeptide binding]; other site 935296008529 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 935296008530 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 935296008531 active site 935296008532 catalytic tetrad [active] 935296008533 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 935296008534 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 935296008535 active site 935296008536 motif I; other site 935296008537 motif II; other site 935296008538 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 935296008539 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 935296008540 Walker A/P-loop; other site 935296008541 ATP binding site [chemical binding]; other site 935296008542 Q-loop/lid; other site 935296008543 ABC transporter signature motif; other site 935296008544 Walker B; other site 935296008545 D-loop; other site 935296008546 H-loop/switch region; other site 935296008547 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 935296008548 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 935296008549 dimer interface [polypeptide binding]; other site 935296008550 conserved gate region; other site 935296008551 putative PBP binding loops; other site 935296008552 ABC-ATPase subunit interface; other site 935296008553 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 935296008554 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 935296008555 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 935296008556 homodimer interaction site [polypeptide binding]; other site 935296008557 cofactor binding site; other site 935296008558 prolyl-tRNA synthetase; Provisional; Region: PRK09194 935296008559 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 935296008560 dimer interface [polypeptide binding]; other site 935296008561 motif 1; other site 935296008562 active site 935296008563 motif 2; other site 935296008564 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 935296008565 putative deacylase active site [active] 935296008566 motif 3; other site 935296008567 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 935296008568 anticodon binding site; other site 935296008569 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 935296008570 NlpE N-terminal domain; Region: NlpE; cl19736 935296008571 hypothetical protein; Provisional; Region: PRK09256 935296008572 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 935296008573 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4681 935296008574 hypothetical protein; Provisional; Region: PRK04964 935296008575 Rho-binding antiterminator; Provisional; Region: PRK11625 935296008576 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 935296008577 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 935296008578 Ligand Binding Site [chemical binding]; other site 935296008579 TilS substrate binding domain; Region: TilS; pfam09179 935296008580 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 935296008581 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 935296008582 putative metal binding site [ion binding]; other site 935296008583 lysine decarboxylase LdcC; Provisional; Region: PRK15399 935296008584 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 935296008585 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 935296008586 homodimer interface [polypeptide binding]; other site 935296008587 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296008588 catalytic residue [active] 935296008589 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 935296008590 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 935296008591 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 935296008592 putative sugar binding site [chemical binding]; other site 935296008593 catalytic residues [active] 935296008594 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 935296008595 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 935296008596 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 935296008597 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 935296008598 putative active site [active] 935296008599 putative PHP Thumb interface [polypeptide binding]; other site 935296008600 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 935296008601 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 935296008602 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 935296008603 generic binding surface II; other site 935296008604 generic binding surface I; other site 935296008605 Bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 935296008606 RNA/DNA hybrid binding site [nucleotide binding]; other site 935296008607 active site 935296008608 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 935296008609 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; cd01635 935296008610 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 935296008611 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 935296008612 active site 935296008613 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 935296008614 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 935296008615 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 935296008616 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 935296008617 trimer interface [polypeptide binding]; other site 935296008618 active site 935296008619 UDP-GlcNAc binding site [chemical binding]; other site 935296008620 lipid binding site [chemical binding]; lipid-binding site 935296008621 periplasmic chaperone; Provisional; Region: PRK10780 935296008622 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 935296008623 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 935296008624 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 935296008625 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 935296008626 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 935296008627 Surface antigen; Region: Bac_surface_Ag; pfam01103 935296008628 zinc metallopeptidase RseP; Provisional; Region: PRK10779 935296008629 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 935296008630 active site 935296008631 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 935296008632 protein binding site [polypeptide binding]; other site 935296008633 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 935296008634 protein binding site [polypeptide binding]; other site 935296008635 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 935296008636 putative substrate binding region [chemical binding]; other site 935296008637 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 935296008638 Cis (Z)-Isoprenyl Diphosphate Synthases; Region: Cis_IPPS; cd00475 935296008639 active site 935296008640 dimer interface [polypeptide binding]; other site 935296008641 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 935296008642 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 935296008643 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 935296008644 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 935296008645 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 935296008646 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 935296008647 hinge region; other site 935296008648 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 935296008649 nucleotide binding site [chemical binding]; other site 935296008650 uridylate kinase; Provisional; Region: pyrH; PRK00358 935296008651 substrate binding site [chemical binding]; other site 935296008652 nucleotide binding site [chemical binding]; other site 935296008653 elongation factor Ts; Provisional; Region: tsf; PRK09377 935296008654 UBA/TS-N domain; Region: UBA; pfam00627 935296008655 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 935296008656 rRNA interaction site [nucleotide binding]; other site 935296008657 S8 interaction site; other site 935296008658 putative laminin-1 binding site; other site 935296008659 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 935296008660 active site 935296008661 PII uridylyl-transferase; Provisional; Region: PRK05007 935296008662 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 935296008663 metal binding triad; other site 935296008664 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 935296008665 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 935296008666 Zn2+ binding site [ion binding]; other site 935296008667 Mg2+ binding site [ion binding]; other site 935296008668 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 935296008669 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 935296008670 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 935296008671 Tetrahydrodipicolinate N-succinyltransferase N-terminal; Region: THDPS_N_2; pfam14805 935296008672 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 935296008673 trimer interface [polypeptide binding]; other site 935296008674 active site 935296008675 substrate binding site [chemical binding]; other site 935296008676 CoA binding site [chemical binding]; other site 935296008677 hypothetical protein; Provisional; Region: PRK13677 935296008678 Peptidase M60-like family; Region: M60-like; cl19940 935296008679 Peptidase M60-like family; Region: M60-like; cl19940 935296008680 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 935296008681 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 935296008682 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 935296008683 serine endoprotease; Provisional; Region: PRK10942 935296008684 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 935296008685 PDZ domain of trypsin-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 935296008686 protein binding site [polypeptide binding]; other site 935296008687 PDZ domain of trypsin-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 935296008688 protein binding site [polypeptide binding]; other site 935296008689 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 935296008690 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 935296008691 Zn2+ binding site [ion binding]; other site 935296008692 Mg2+ binding site [ion binding]; other site 935296008693 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 935296008694 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 935296008695 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 935296008696 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 935296008697 cobalamin binding residues [chemical binding]; other site 935296008698 putative BtuC binding residues; other site 935296008699 dimer interface [polypeptide binding]; other site 935296008700 hypothetical protein; Provisional; Region: PRK10578 935296008701 UPF0126 domain; Region: UPF0126; pfam03458 935296008702 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 935296008703 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 935296008704 Cl- selectivity filter; other site 935296008705 Cl- binding residues [ion binding]; other site 935296008706 pore gating glutamate residue; other site 935296008707 dimer interface [polypeptide binding]; other site 935296008708 H+/Cl- coupling transport residue; other site 935296008709 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 935296008710 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 935296008711 inhibitor-cofactor binding pocket; inhibition site 935296008712 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296008713 catalytic residue [active] 935296008714 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 935296008715 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 935296008716 ABC-ATPase subunit interface; other site 935296008717 dimer interface [polypeptide binding]; other site 935296008718 putative PBP binding regions; other site 935296008719 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 935296008720 ABC-ATPase subunit interface; other site 935296008721 dimer interface [polypeptide binding]; other site 935296008722 putative PBP binding regions; other site 935296008723 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 935296008724 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 935296008725 siderophore binding site; other site 935296008726 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 935296008727 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 935296008728 Walker A/P-loop; other site 935296008729 ATP binding site [chemical binding]; other site 935296008730 Q-loop/lid; other site 935296008731 ABC transporter signature motif; other site 935296008732 Walker B; other site 935296008733 D-loop; other site 935296008734 H-loop/switch region; other site 935296008735 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 935296008736 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 935296008737 N-terminal plug; other site 935296008738 ligand-binding site [chemical binding]; other site 935296008739 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 935296008740 Transmembrane domain of transglycosylase PBP1 at N-terminal; Region: PBP1_TM; pfam14812 935296008741 Bifunctional transglycosylase second domain; Region: UB2H; pfam14814 935296008742 Transglycosylase; Region: Transgly; pfam00912 935296008743 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 935296008744 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 935296008745 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 935296008746 ATP binding site [chemical binding]; other site 935296008747 putative Mg++ binding site [ion binding]; other site 935296008748 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 935296008749 nucleotide binding region [chemical binding]; other site 935296008750 ATP-binding site [chemical binding]; other site 935296008751 Helicase associated domain (HA2); Region: HA2; pfam04408 935296008752 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 935296008753 2'-5' RNA ligase; Provisional; Region: PRK15124 935296008754 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 935296008755 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 935296008756 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 935296008757 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 935296008758 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 935296008759 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 935296008760 active site 935296008761 nucleotide binding site [chemical binding]; other site 935296008762 HIGH motif; other site 935296008763 KMSKS motif; other site 935296008764 poly(A) polymerase; Region: pcnB; TIGR01942 935296008765 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 935296008766 active site 935296008767 NTP binding site [chemical binding]; other site 935296008768 metal binding triad [ion binding]; metal-binding site 935296008769 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 935296008770 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 935296008771 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 935296008772 catalytic center binding site [active] 935296008773 ATP binding site [chemical binding]; other site 935296008774 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 935296008775 oligomerization interface [polypeptide binding]; other site 935296008776 active site 935296008777 metal binding site [ion binding]; metal-binding site 935296008778 Pantoate-beta-alanine ligase; Region: PanC; cd00560 935296008779 active site 935296008780 ATP-binding site [chemical binding]; other site 935296008781 pantoate-binding site; other site 935296008782 HXXH motif; other site 935296008783 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 935296008784 tetramerization interface [polypeptide binding]; other site 935296008785 active site 935296008786 Bacterial SH3 domain; Region: SH3_3; pfam08239 935296008787 Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and similar proteins; Region: CE4_yadE_5s; cd10966 935296008788 putative active site [active] 935296008789 putative metal binding site [ion binding]; other site 935296008790 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 935296008791 active pocket/dimerization site; other site 935296008792 active site 935296008793 phosphorylation site [posttranslational modification] 935296008794 inner membrane transport permease; Provisional; Region: PRK15066 935296008795 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 935296008796 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 935296008797 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 935296008798 Walker A/P-loop; other site 935296008799 ATP binding site [chemical binding]; other site 935296008800 Q-loop/lid; other site 935296008801 ABC transporter signature motif; other site 935296008802 Walker B; other site 935296008803 D-loop; other site 935296008804 H-loop/switch region; other site 935296008805 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 935296008806 active site clefts [active] 935296008807 zinc binding site [ion binding]; other site 935296008808 dimer interface [polypeptide binding]; other site 935296008809 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935296008810 active site 935296008811 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 935296008812 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 935296008813 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 935296008814 Trp docking motif [polypeptide binding]; other site 935296008815 putative active site [active] 935296008816 multicopper oxidase; Provisional; Region: PRK10965 935296008817 The first Cupredoxin domain of the multicopper oxidase CueO, the cell division protein FtsP, and similar proteins; Region: CuRO_1_CueO_FtsP; cd04232 935296008818 Domain 2 interface [polypeptide binding]; other site 935296008819 Domain 3 interface [polypeptide binding]; other site 935296008820 trinuclear Cu binding site [ion binding]; other site 935296008821 The second Cupredoxin domain of the multicopper oxidase CueO, the cell division protein FtsP, and similar proteins; Region: CuRO_2_CueO_FtsP; cd13867 935296008822 Domain 1 interface [polypeptide binding]; other site 935296008823 Domain 3 interface [polypeptide binding]; other site 935296008824 The third Cupredoxin domain of the multicopper oxidase CueO, the cell division protein FtsP, and similar proteins; Region: CuRO_3_CueO_FtsP; cd13890 935296008825 Domain 1 interface [polypeptide binding]; other site 935296008826 Domain 2 interface [polypeptide binding]; other site 935296008827 Type 1 (T1) Cu binding site [ion binding]; other site 935296008828 trinuclear Cu binding site [ion binding]; other site 935296008829 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 935296008830 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 935296008831 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 935296008832 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 935296008833 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 935296008834 S-adenosylmethionine binding site [chemical binding]; other site 935296008835 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 935296008836 hypothetical protein; Provisional; Region: PRK05248 935296008837 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 935296008838 Aconitate B N-terminal domain; Region: Aconitase_B_N; pfam11791 935296008839 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 935296008840 substrate binding site [chemical binding]; other site 935296008841 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 935296008842 substrate binding site [chemical binding]; other site 935296008843 ligand binding site [chemical binding]; other site 935296008844 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 935296008845 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 935296008846 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 935296008847 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 935296008848 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935296008849 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 935296008850 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 935296008851 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 935296008852 E3 interaction surface; other site 935296008853 lipoyl attachment site [posttranslational modification]; other site 935296008854 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 935296008855 E3 interaction surface; other site 935296008856 lipoyl attachment site [posttranslational modification]; other site 935296008857 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 935296008858 E3 interaction surface; other site 935296008859 lipoyl attachment site [posttranslational modification]; other site 935296008860 e3 binding domain; Region: E3_binding; pfam02817 935296008861 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 935296008862 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 935296008863 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 935296008864 dimer interface [polypeptide binding]; other site 935296008865 TPP-binding site [chemical binding]; other site 935296008866 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 935296008867 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935296008868 DNA-binding site [nucleotide binding]; DNA binding site 935296008869 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 935296008870 5-oxoprolinase; Region: PLN02666 935296008871 aromatic amino acid transporter; Provisional; Region: PRK10238 935296008872 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 935296008873 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 935296008874 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 935296008875 putative substrate translocation pore; other site 935296008876 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 935296008877 active site 935296008878 regulatory protein AmpE; Provisional; Region: PRK10987 935296008879 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 935296008880 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 935296008881 amidase catalytic site [active] 935296008882 Zn binding residues [ion binding]; other site 935296008883 substrate binding site [chemical binding]; other site 935296008884 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 935296008885 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 935296008886 dimerization interface [polypeptide binding]; other site 935296008887 active site 935296008888 putative major pilin subunit; Provisional; Region: PRK10574 935296008889 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 935296008890 Pilin (bacterial filament); Region: Pilin; pfam00114 935296008891 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 935296008892 Walker A motif; other site 935296008893 ATP binding site [chemical binding]; other site 935296008894 Walker B motif; other site 935296008895 type IV pilin biogenesis protein; Provisional; Region: PRK10573 935296008896 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 935296008897 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 935296008898 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 935296008899 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 935296008900 active site 935296008901 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 935296008902 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 935296008903 CoA-binding site [chemical binding]; other site 935296008904 ATP-binding [chemical binding]; other site 935296008905 hypothetical protein; Provisional; Region: PRK05287 935296008906 DNA gyrase inhibitor; Reviewed; Region: PRK00418 935296008907 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 935296008908 active site 935296008909 8-oxo-dGMP binding site [chemical binding]; other site 935296008910 nudix motif; other site 935296008911 metal binding site [ion binding]; metal-binding site 935296008912 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 935296008913 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 935296008914 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 935296008915 SEC-C motif; Region: SEC-C; pfam02810 935296008916 SecA regulator SecM; Provisional; Region: PRK02943 935296008917 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 935296008918 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 935296008919 cell division protein FtsZ; Validated; Region: PRK09330 935296008920 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 935296008921 nucleotide binding site [chemical binding]; other site 935296008922 SulA interaction site; other site 935296008923 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 935296008924 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 935296008925 Cell division protein FtsA; Region: FtsA; smart00842 935296008926 Cell division protein FtsA; Region: FtsA; pfam14450 935296008927 cell division protein FtsQ; Provisional; Region: PRK10775 935296008928 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 935296008929 Cell division protein FtsQ; Region: FtsQ; pfam03799 935296008930 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 935296008931 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 935296008932 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 935296008933 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 935296008934 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 935296008935 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 935296008936 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 935296008937 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 935296008938 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 935296008939 active site 935296008940 homodimer interface [polypeptide binding]; other site 935296008941 cell division protein FtsW; Provisional; Region: PRK10774 935296008942 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 935296008943 Protein of unknown function (DUF2453); Region: DUF2453; pfam10507 935296008944 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 935296008945 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 935296008946 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 935296008947 Mg++ binding site [ion binding]; other site 935296008948 putative catalytic motif [active] 935296008949 putative substrate binding site [chemical binding]; other site 935296008950 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 935296008951 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 935296008952 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 935296008953 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 935296008954 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 935296008955 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 935296008956 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 935296008957 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 935296008958 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 935296008959 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 935296008960 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 935296008961 Cell division protein FtsL; Region: FtsL; cl11433 935296008962 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 935296008963 mraZ protein; Region: TIGR00242 935296008964 MraZ protein; Region: MraZ; pfam02381 935296008965 MraZ protein; Region: MraZ; pfam02381 935296008966 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 935296008967 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 935296008968 DNA binding site [nucleotide binding] 935296008969 domain linker motif; other site 935296008970 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 935296008971 dimerization interface [polypeptide binding]; other site 935296008972 ligand binding site [chemical binding]; other site 935296008973 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 935296008974 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 935296008975 putative valine binding site [chemical binding]; other site 935296008976 dimer interface [polypeptide binding]; other site 935296008977 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 935296008978 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 935296008979 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 935296008980 PYR/PP interface [polypeptide binding]; other site 935296008981 dimer interface [polypeptide binding]; other site 935296008982 TPP binding site [chemical binding]; other site 935296008983 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 935296008984 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 935296008985 TPP-binding site [chemical binding]; other site 935296008986 dimer interface [polypeptide binding]; other site 935296008987 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 935296008988 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296008989 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 935296008990 putative substrate binding pocket [chemical binding]; other site 935296008991 putative dimerization interface [polypeptide binding]; other site 935296008992 2-isopropylmalate synthase; Validated; Region: PRK00915 935296008993 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 935296008994 active site 935296008995 catalytic residues [active] 935296008996 metal binding site [ion binding]; metal-binding site 935296008997 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 935296008998 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 935296008999 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 935296009000 substrate binding site [chemical binding]; other site 935296009001 ligand binding site [chemical binding]; other site 935296009002 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 935296009003 substrate binding site [chemical binding]; other site 935296009004 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 935296009005 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_family; cd02803 935296009006 active site 935296009007 FMN binding site [chemical binding]; other site 935296009008 substrate binding site [chemical binding]; other site 935296009009 putative catalytic residue [active] 935296009010 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 935296009011 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 935296009012 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 935296009013 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 935296009014 shikimate binding site; other site 935296009015 NAD(P) binding site [chemical binding]; other site 935296009016 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 935296009017 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935296009018 putative substrate translocation pore; other site 935296009019 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 935296009020 active site 935296009021 catalytic residue [active] 935296009022 dimer interface [polypeptide binding]; other site 935296009023 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296009024 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296009025 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 935296009026 putative dimerization interface [polypeptide binding]; other site 935296009027 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 935296009028 D-galactonate transporter; Region: 2A0114; TIGR00893 935296009029 putative substrate translocation pore; other site 935296009030 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 935296009031 sugar efflux transporter; Region: 2A0120; TIGR00899 935296009032 putative substrate translocation pore; other site 935296009033 transcriptional regulator SgrR; Provisional; Region: PRK13626 935296009034 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 935296009035 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 935296009036 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 935296009037 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 935296009038 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 935296009039 dimer interface [polypeptide binding]; other site 935296009040 conserved gate region; other site 935296009041 putative PBP binding loops; other site 935296009042 ABC-ATPase subunit interface; other site 935296009043 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 935296009044 dimer interface [polypeptide binding]; other site 935296009045 conserved gate region; other site 935296009046 putative PBP binding loops; other site 935296009047 ABC-ATPase subunit interface; other site 935296009048 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 935296009049 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296009050 Walker A/P-loop; other site 935296009051 ATP binding site [chemical binding]; other site 935296009052 Q-loop/lid; other site 935296009053 ABC transporter signature motif; other site 935296009054 Walker B; other site 935296009055 D-loop; other site 935296009056 H-loop/switch region; other site 935296009057 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 935296009058 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 935296009059 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 935296009060 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296009061 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296009062 ribulokinase; Provisional; Region: PRK04123 935296009063 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 935296009064 N- and C-terminal domain interface [polypeptide binding]; other site 935296009065 active site 935296009066 MgATP binding site [chemical binding]; other site 935296009067 catalytic site [active] 935296009068 metal binding site [ion binding]; metal-binding site 935296009069 carbohydrate binding site [chemical binding]; other site 935296009070 homodimer interface [polypeptide binding]; other site 935296009071 L-arabinose isomerase; Provisional; Region: PRK02929 935296009072 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 935296009073 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 935296009074 trimer interface [polypeptide binding]; other site 935296009075 putative substrate binding site [chemical binding]; other site 935296009076 putative metal binding site [ion binding]; other site 935296009077 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 935296009078 intersubunit interface [polypeptide binding]; other site 935296009079 active site 935296009080 Zn2+ binding site [ion binding]; other site 935296009081 DNA polymerase II; Reviewed; Region: PRK05762 935296009082 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 935296009083 active site 935296009084 catalytic site [active] 935296009085 substrate binding site [chemical binding]; other site 935296009086 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 935296009087 active site 935296009088 metal-binding site 935296009089 ATP-dependent helicase HepA; Validated; Region: PRK04914 935296009090 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 935296009091 ATP binding site [chemical binding]; other site 935296009092 putative Mg++ binding site [ion binding]; other site 935296009093 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 935296009094 nucleotide binding region [chemical binding]; other site 935296009095 ATP-binding site [chemical binding]; other site 935296009096 RNA polymerase recycling family C-terminal; Region: RapA_C; pfam12137 935296009097 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 935296009098 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 935296009099 active site 935296009100 holo-ACP synthase CitX; Region: citrate_citX; TIGR03124 935296009101 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 935296009102 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 935296009103 Sensory domain of two-component sensor kinase; Region: Cache_3; pfam14827 935296009104 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 935296009105 putative active site [active] 935296009106 Sensor_kinase_SpoOB-type, alpha-helical domain; Region: SPOB_a; pfam14689 935296009107 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 935296009108 ATP binding site [chemical binding]; other site 935296009109 Mg2+ binding site [ion binding]; other site 935296009110 G-X-G motif; other site 935296009111 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 935296009112 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 935296009113 active site 935296009114 phosphorylation site [posttranslational modification] 935296009115 intermolecular recognition site; other site 935296009116 dimerization interface [polypeptide binding]; other site 935296009117 Transcriptional regulator; Region: CitT; pfam12431 935296009118 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 935296009119 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 935296009120 putative metal binding site [ion binding]; other site 935296009121 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 935296009122 HSP70 interaction site [polypeptide binding]; other site 935296009123 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 935296009124 OstA-like protein; Region: OstA; pfam03968 935296009125 Organic solvent tolerance protein; Region: OstA_C; pfam04453 935296009126 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 935296009127 SurA N-terminal domain; Region: SurA_N; pfam09312 935296009128 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 935296009129 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 935296009130 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 935296009131 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 935296009132 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 935296009133 bis(5'-nucleosyl)-tetraphosphatase (symmetrical); Region: apaH; TIGR00668 935296009134 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 935296009135 active site 935296009136 metal binding site [ion binding]; metal-binding site 935296009137 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 935296009138 folate binding site [chemical binding]; other site 935296009139 NADP+ binding site [chemical binding]; other site 935296009140 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 935296009141 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 935296009142 TrkA-N domain; Region: TrkA_N; pfam02254 935296009143 glutathione-regulated potassium-efflux system ancillary protein KefF; Provisional; Region: PRK00871 935296009144 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 935296009145 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 935296009146 Autotransporter beta-domain; Region: Autotransporter; smart00869 935296009147 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 935296009148 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 935296009149 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 935296009150 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 935296009151 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 935296009152 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 935296009153 ATP-grasp domain; Region: ATP-grasp_4; cl17255 935296009154 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 935296009155 IMP binding site; other site 935296009156 dimer interface [polypeptide binding]; other site 935296009157 interdomain contacts; other site 935296009158 partial ornithine binding site; other site 935296009159 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 935296009160 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 935296009161 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 935296009162 catalytic site [active] 935296009163 subunit interface [polypeptide binding]; other site 935296009164 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 935296009165 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 935296009166 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 935296009167 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 935296009168 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 935296009169 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 935296009170 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 935296009171 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 935296009172 [citrate (pro-3S)-lyase] ligase; Region: cit_ly_ligase; TIGR00124 935296009173 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 935296009174 putative active site [active] 935296009175 (T/H)XGH motif; other site 935296009176 Na+/citrate symporter [Energy production and conversion]; Region: CitS; COG3493 935296009177 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; cl01458 935296009178 oxaloacetate decarboxylase; Provisional; Region: PRK14040 935296009179 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 935296009180 active site 935296009181 catalytic residues [active] 935296009182 metal binding site [ion binding]; metal-binding site 935296009183 homodimer binding site [polypeptide binding]; other site 935296009184 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 935296009185 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 935296009186 carboxyltransferase (CT) interaction site; other site 935296009187 biotinylation site [posttranslational modification]; other site 935296009188 Na+-transporting oxaloacetate decarboxylase beta subunit; Region: OAD_beta; cl00816 935296009189 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 935296009190 Sensory domain of two-component sensor kinase; Region: Cache_3; pfam14827 935296009191 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 935296009192 putative active site [active] 935296009193 Sensor_kinase_SpoOB-type, alpha-helical domain; Region: SPOB_a; pfam14689 935296009194 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 935296009195 ATP binding site [chemical binding]; other site 935296009196 Mg2+ binding site [ion binding]; other site 935296009197 G-X-G motif; other site 935296009198 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 935296009199 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 935296009200 active site 935296009201 phosphorylation site [posttranslational modification] 935296009202 intermolecular recognition site; other site 935296009203 dimerization interface [polypeptide binding]; other site 935296009204 Transcriptional regulator; Region: CitT; pfam12431 935296009205 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 935296009206 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 935296009207 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296009208 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296009209 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 935296009210 putative effector binding pocket; other site 935296009211 dimerization interface [polypeptide binding]; other site 935296009212 putative hydratase; Provisional; Region: PRK11413 935296009213 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 935296009214 substrate binding site [chemical binding]; other site 935296009215 ligand binding site [chemical binding]; other site 935296009216 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 935296009217 substrate binding site [chemical binding]; other site 935296009218 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 935296009219 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 935296009220 transmembrane helices; other site 935296009221 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 935296009222 anion transporter; Region: dass; TIGR00785 935296009223 transmembrane helices; other site 935296009224 PrpF protein; Region: PrpF; cl19418 935296009225 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296009226 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296009227 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 935296009228 putative dimerization interface [polypeptide binding]; other site 935296009229 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 935296009230 active site 935296009231 tetramer interface [polypeptide binding]; other site 935296009232 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Region: lytB_ispH; cd13944 935296009233 Fe-S cluster binding site [ion binding]; other site 935296009234 substrate binding site [chemical binding]; other site 935296009235 catalytic site [active] 935296009236 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 935296009237 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 935296009238 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 935296009239 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 935296009240 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 935296009241 active site 935296009242 HIGH motif; other site 935296009243 KMSKS motif; other site 935296009244 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 935296009245 tRNA binding surface [nucleotide binding]; other site 935296009246 anticodon binding site; other site 935296009247 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 935296009248 Riboflavin kinase; Region: Flavokinase; smart00904 935296009249 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 935296009250 active site 935296009251 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 935296009252 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 935296009253 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296009254 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 935296009255 putative dimerization interface [polypeptide binding]; other site 935296009256 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 935296009257 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 935296009258 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 935296009259 catalytic residues [active] 935296009260 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 935296009261 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 935296009262 Fimbrial protein; Region: Fimbrial; cl01416 935296009263 Fimbrial protein; Region: Fimbrial; cl01416 935296009264 Fimbrial protein; Region: Fimbrial; cl01416 935296009265 outer membrane usher protein; Provisional; Region: PRK15193 935296009266 PapC N-terminal domain; Region: PapC_N; pfam13954 935296009267 Outer membrane usher protein; Region: Usher; pfam00577 935296009268 PapC C-terminal domain; Region: PapC_C; pfam13953 935296009269 fimbrial chaperone protein BcfB; Provisional; Region: PRK15188 935296009270 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 935296009271 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 935296009272 Fimbrial protein; Region: Fimbrial; cl01416 935296009273 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 935296009274 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 935296009275 Procyclic acidic repetitive protein (PARP); Region: Trypan_PARP; pfam05887 935296009276 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 935296009277 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 935296009278 active site 935296009279 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 935296009280 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 935296009281 aromatic chitin/cellulose binding site residues [chemical binding]; other site 935296009282 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 935296009283 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 935296009284 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 935296009285 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 935296009286 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296009287 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296009288 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 935296009289 dimerization interface [polypeptide binding]; other site 935296009290 chaperone protein DnaJ; Provisional; Region: PRK10767 935296009291 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 935296009292 HSP70 interaction site [polypeptide binding]; other site 935296009293 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 935296009294 substrate binding site [polypeptide binding]; other site 935296009295 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 935296009296 Zn binding sites [ion binding]; other site 935296009297 dimer interface [polypeptide binding]; other site 935296009298 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 935296009299 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 935296009300 nucleotide binding site [chemical binding]; other site 935296009301 hypothetical protein; Provisional; Region: PRK10659 935296009302 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 935296009303 metabolite-proton symporter; Region: 2A0106; TIGR00883 935296009304 putative substrate translocation pore; other site 935296009305 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 935296009306 MPT binding site; other site 935296009307 trimer interface [polypeptide binding]; other site 935296009308 transaldolase-like protein; Provisional; Region: PTZ00411 935296009309 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 935296009310 active site 935296009311 dimer interface [polypeptide binding]; other site 935296009312 catalytic residue [active] 935296009313 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 935296009314 hypothetical protein; Validated; Region: PRK02101 935296009315 threonine synthase; Validated; Region: PRK09225 935296009316 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 935296009317 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 935296009318 catalytic residue [active] 935296009319 homoserine kinase; Provisional; Region: PRK01212 935296009320 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 935296009321 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 935296009322 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 935296009323 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 935296009324 putative catalytic residues [active] 935296009325 putative nucleotide binding site [chemical binding]; other site 935296009326 putative aspartate binding site [chemical binding]; other site 935296009327 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 935296009328 dimer interface [polypeptide binding]; other site 935296009329 putative threonine allosteric regulatory site; other site 935296009330 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 935296009331 putative threonine allosteric regulatory site; other site 935296009332 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 935296009333 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 935296009334 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 935296009335 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 935296009336 putative RNA methyltransferase; Provisional; Region: PRK10433 935296009337 two-component response regulator; Provisional; Region: PRK11173 935296009338 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 935296009339 active site 935296009340 phosphorylation site [posttranslational modification] 935296009341 intermolecular recognition site; other site 935296009342 dimerization interface [polypeptide binding]; other site 935296009343 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 935296009344 DNA binding site [nucleotide binding] 935296009345 Inner membrane protein CreD; Region: CreD; cl01844 935296009346 sensory histidine kinase CreC; Provisional; Region: PRK11100 935296009347 Sensory domain of two-component sensor kinase; Region: Cache_3; pfam14827 935296009348 HAMP domain; Region: HAMP; pfam00672 935296009349 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 935296009350 dimer interface [polypeptide binding]; other site 935296009351 phosphorylation site [posttranslational modification] 935296009352 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 935296009353 ATP binding site [chemical binding]; other site 935296009354 Mg2+ binding site [ion binding]; other site 935296009355 G-X-G motif; other site 935296009356 DNA-binding response regulator CreB; Provisional; Region: PRK11083 935296009357 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 935296009358 active site 935296009359 phosphorylation site [posttranslational modification] 935296009360 intermolecular recognition site; other site 935296009361 dimerization interface [polypeptide binding]; other site 935296009362 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 935296009363 DNA binding site [nucleotide binding] 935296009364 hypothetical protein; Provisional; Region: PRK10756 935296009365 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 935296009366 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296009367 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296009368 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 935296009369 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 935296009370 catalytic core [active] 935296009371 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 935296009372 Trp operon repressor; Provisional; Region: PRK01381 935296009373 lytic murein transglycosylase; Provisional; Region: PRK11619 935296009374 Soluble lytic murein transglycosylase L domain; Region: SLT_L; pfam14718 935296009375 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 935296009376 N-acetyl-D-glucosamine binding site [chemical binding]; other site 935296009377 catalytic residue [active] 935296009378 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 935296009379 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935296009380 ABC transporter; Region: ABC_tran_2; pfam12848 935296009381 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935296009382 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 935296009383 non-specific DNA binding site [nucleotide binding]; other site 935296009384 salt bridge; other site 935296009385 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 935296009386 sequence-specific DNA binding site [nucleotide binding]; other site 935296009387 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 935296009388 active site 935296009389 (T/H)XGH motif; other site 935296009390 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 935296009391 DNA repair protein RadA; Region: sms; TIGR00416 935296009392 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 935296009393 Walker A motif/ATP binding site; other site 935296009394 ATP binding site [chemical binding]; other site 935296009395 Walker B motif; other site 935296009396 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 935296009397 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 935296009398 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 935296009399 motif II; other site 935296009400 hypothetical protein; Provisional; Region: PRK11246 935296009401 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 935296009402 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 935296009403 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 935296009404 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 935296009405 phosphopentomutase; Provisional; Region: PRK05362 935296009406 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 935296009407 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 935296009408 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 935296009409 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 935296009410 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 935296009411 intersubunit interface [polypeptide binding]; other site 935296009412 active site 935296009413 catalytic residue [active] 935296009414 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 935296009415 active site 935296009416 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 935296009417 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 935296009418 active site 935296009419 nucleophile elbow; other site 935296009420 Small integral membrane protein [Function unknown]; Region: COG5487 935296009421 periplasmic protein; Provisional; Region: PRK10568 935296009422 BON domain; Region: BON; pfam04972 935296009423 BON domain; Region: BON; pfam04972 935296009424 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 935296009425 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 935296009426 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 935296009427 G1 box; other site 935296009428 putative GEF interaction site [polypeptide binding]; other site 935296009429 GTP/Mg2+ binding site [chemical binding]; other site 935296009430 Switch I region; other site 935296009431 G2 box; other site 935296009432 G3 box; other site 935296009433 Switch II region; other site 935296009434 G4 box; other site 935296009435 G5 box; other site 935296009436 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 935296009437 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 935296009438 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 935296009439 motif II; other site 935296009440 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 935296009441 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296009442 Coenzyme A binding pocket [chemical binding]; other site 935296009443 DNA polymerase III subunit psi; Validated; Region: PRK06856 935296009444 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 935296009445 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 935296009446 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 935296009447 S-adenosylmethionine binding site [chemical binding]; other site 935296009448 Protein of unknown function (DUF1435); Region: DUF1435; pfam07256 935296009449 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 935296009450 metal binding site [ion binding]; metal-binding site 935296009451 active site 935296009452 I-site; other site 935296009453 ferric iron reductase involved in ferric hydroximate transport; Provisional; Region: PRK10647 935296009454 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 935296009455 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 935296009456 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 935296009457 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 935296009458 putative deacylase active site [active] 935296009459 DNA-binding transcriptional activator BglJ; Provisional; Region: PRK11475 935296009460 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 935296009461 DNA binding residues [nucleotide binding] 935296009462 dimerization interface [polypeptide binding]; other site 935296009463 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 935296009464 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 935296009465 DNA binding residues [nucleotide binding] 935296009466 dimerization interface [polypeptide binding]; other site 935296009467 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 935296009468 Cupin domain; Region: Cupin_2; cl17218 935296009469 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296009470 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 935296009471 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 935296009472 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 935296009473 Uncharacterized conserved protein [Function unknown]; Region: COG2966 935296009474 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 935296009475 hypothetical protein; Provisional; Region: PRK09917 935296009476 primosomal protein DnaI; Provisional; Region: PRK02854 935296009477 DNA replication protein DnaC; Validated; Region: PRK07952 935296009478 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 935296009479 Walker A motif; other site 935296009480 ATP binding site [chemical binding]; other site 935296009481 Walker B motif; other site 935296009482 hypothetical protein; Provisional; Region: PRK11667 935296009483 phosphoglycerol transferase I; Provisional; Region: PRK03776 935296009484 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 935296009485 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296009486 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 935296009487 Coenzyme A binding pocket [chemical binding]; other site 935296009488 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 935296009489 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296009490 Coenzyme A binding pocket [chemical binding]; other site 935296009491 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 935296009492 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 935296009493 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 935296009494 putative active site [active] 935296009495 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 935296009496 active site 935296009497 intersubunit interface [polypeptide binding]; other site 935296009498 catalytic residue [active] 935296009499 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 935296009500 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 935296009501 Na binding site [ion binding]; other site 935296009502 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 935296009503 homotrimer interaction site [polypeptide binding]; other site 935296009504 putative active site [active] 935296009505 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 935296009506 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 935296009507 active site 935296009508 putative substrate binding pocket [chemical binding]; other site 935296009509 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 935296009510 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 935296009511 dimer interface [polypeptide binding]; other site 935296009512 active site 935296009513 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 935296009514 substrate binding site [chemical binding]; other site 935296009515 catalytic residue [active] 935296009516 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 935296009517 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 935296009518 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 935296009519 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 935296009520 dimer interface [polypeptide binding]; other site 935296009521 NADP binding site [chemical binding]; other site 935296009522 catalytic residues [active] 935296009523 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 935296009524 inhibitor site; inhibition site 935296009525 active site 935296009526 dimer interface [polypeptide binding]; other site 935296009527 catalytic residue [active] 935296009528 PAS fold; Region: PAS_4; pfam08448 935296009529 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296009530 Helix-turn-helix domain; Region: HTH_18; pfam12833 935296009531 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296009532 hydroxyproline-2-epimerase; Provisional; Region: PRK13971; cl19687 935296009533 Proline racemase; Region: Pro_racemase; pfam05544 935296009534 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 935296009535 FAD dependent oxidoreductase; Region: DAO; pfam01266 935296009536 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 935296009537 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 935296009538 catalytic loop [active] 935296009539 iron binding site [ion binding]; other site 935296009540 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 935296009541 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 935296009542 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 935296009543 Transcriptional regulators [Transcription]; Region: MarR; COG1846 935296009544 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 935296009545 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 935296009546 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 935296009547 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 935296009548 NAD binding site [chemical binding]; other site 935296009549 catalytic residues [active] 935296009550 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 935296009551 putative active site [active] 935296009552 putative metal binding site [ion binding]; other site 935296009553 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 935296009554 putative substrate binding pocket [chemical binding]; other site 935296009555 trimer interface [polypeptide binding]; other site 935296009556 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 935296009557 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase; Region: HpaI; TIGR02311 935296009558 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 935296009559 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 935296009560 putative substrate translocation pore; other site 935296009561 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 935296009562 Cupin domain; Region: Cupin_2; pfam07883 935296009563 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 935296009564 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296009565 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 935296009566 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 935296009567 4-hydroxyphenylacetate 3-monooxygenase reductase subunit; Provisional; Region: hpaC; PRK15486 935296009568 haemagglutination activity domain; Region: Haemagg_act; pfam05860 935296009569 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 935296009570 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 935296009571 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 935296009572 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 935296009573 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 935296009574 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 935296009575 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 935296009576 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 935296009577 carbon starvation protein A; Provisional; Region: PRK15015 935296009578 Carbon starvation protein CstA; Region: CstA; pfam02554 935296009579 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 935296009580 Uncharacterized small protein [Function unknown]; Region: COG2879 935296009581 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 935296009582 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 935296009583 P-loop, Walker A motif; other site 935296009584 Base recognition motif; other site 935296009585 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 935296009586 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 935296009587 NAD(P) binding site [chemical binding]; other site 935296009588 catalytic residues [active] 935296009589 hypothetical protein; Provisional; Region: PRK09956 935296009590 Predicted membrane protein [Function unknown]; Region: COG2733 935296009591 Protein of unknown function (DUF445); Region: DUF445; pfam04286 935296009592 multidrug efflux system protein MdtM; Provisional; Region: PRK15403 935296009593 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 935296009594 putative substrate translocation pore; other site 935296009595 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 935296009596 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 935296009597 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 935296009598 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 935296009599 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 935296009600 Peptidase family M20/M25/M40; Region: Peptidase_M20; pfam01546 935296009601 metal binding site [ion binding]; metal-binding site 935296009602 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 935296009603 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 935296009604 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 935296009605 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; cl17220 935296009606 Transcriptional regulators [Transcription]; Region: MarR; COG1846 935296009607 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 935296009608 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 935296009609 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935296009610 DNA-binding site [nucleotide binding]; DNA binding site 935296009611 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 935296009612 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296009613 homodimer interface [polypeptide binding]; other site 935296009614 catalytic residue [active] 935296009615 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 935296009616 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 935296009617 FosA, a Fosfomycin resistance protein, catalyzes the addition of glutathione to the antibiotic fosfomycin, making it inactive; Region: FosA; cd07244 935296009618 dimer interface [polypeptide binding]; other site 935296009619 Mn binding site [ion binding]; other site 935296009620 K binding site [ion binding]; other site 935296009621 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 935296009622 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 935296009623 Walker A motif; other site 935296009624 ATP binding site [chemical binding]; other site 935296009625 Walker B motif; other site 935296009626 arginine finger; other site 935296009627 Transcriptional antiterminator [Transcription]; Region: COG3933 935296009628 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 935296009629 active site 935296009630 active pocket/dimerization site; other site 935296009631 phosphorylation site [posttranslational modification] 935296009632 PRD domain; Region: PRD; pfam00874 935296009633 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 935296009634 active pocket/dimerization site; other site 935296009635 active site 935296009636 phosphorylation site [posttranslational modification] 935296009637 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 935296009638 active site 935296009639 phosphorylation site [posttranslational modification] 935296009640 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 935296009641 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 935296009642 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl18945 935296009643 Protein of unknown function (DUF1341); Region: DUF1341; cl06211 935296009644 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 935296009645 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935296009646 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 935296009647 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 935296009648 DNA binding site [nucleotide binding] 935296009649 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 935296009650 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 935296009651 Hexamer interface [polypeptide binding]; other site 935296009652 Hexagonal pore residue; other site 935296009653 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 935296009654 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 935296009655 Hexamer interface [polypeptide binding]; other site 935296009656 Hexagonal pore residue; other site 935296009657 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 935296009658 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 935296009659 Hexamer interface [polypeptide binding]; other site 935296009660 Hexagonal pore residue; other site 935296009661 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 935296009662 putative catalytic cysteine [active] 935296009663 Ethanolamine utilisation protein EutN/carboxysome; Region: EutN_CcmL; pfam03319 935296009664 Hexamer/Pentamer interface [polypeptide binding]; other site 935296009665 central pore; other site 935296009666 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 935296009667 putative active site [active] 935296009668 metal binding site [ion binding]; metal-binding site 935296009669 Pyruvate formate lyase; Region: PFL; pfam02901 935296009670 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 935296009671 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 935296009672 dimer interface [polypeptide binding]; other site 935296009673 active site 935296009674 glycine loop; other site 935296009675 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 935296009676 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; cl19102 935296009677 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 935296009678 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 935296009679 Hexamer interface [polypeptide binding]; other site 935296009680 Hexagonal pore residue; other site 935296009681 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 935296009682 Propanediol utilisation protein PduL; Region: PduL; pfam06130 935296009683 Propanediol utilisation protein PduL; Region: PduL; pfam06130 935296009684 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 935296009685 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 935296009686 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 935296009687 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 935296009688 active site 935296009689 HIGH motif; other site 935296009690 dimer interface [polypeptide binding]; other site 935296009691 KMSKS motif; other site 935296009692 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 935296009693 heme-binding site [chemical binding]; other site 935296009694 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 935296009695 metal binding site [ion binding]; metal-binding site 935296009696 active site 935296009697 I-site; other site 935296009698 HlyD family secretion protein; Region: HlyD; pfam00529 935296009699 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 935296009700 HlyD family secretion protein; Region: HlyD_3; pfam13437 935296009701 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 935296009702 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 935296009703 Walker A/P-loop; other site 935296009704 ATP binding site [chemical binding]; other site 935296009705 Q-loop/lid; other site 935296009706 ABC transporter signature motif; other site 935296009707 Walker B; other site 935296009708 D-loop; other site 935296009709 H-loop/switch region; other site 935296009710 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 935296009711 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 935296009712 Walker A/P-loop; other site 935296009713 ATP binding site [chemical binding]; other site 935296009714 Q-loop/lid; other site 935296009715 ABC transporter signature motif; other site 935296009716 Walker B; other site 935296009717 D-loop; other site 935296009718 H-loop/switch region; other site 935296009719 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 935296009720 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 935296009721 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 935296009722 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; cl19580 935296009723 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 935296009724 Protein of unknown function (DUF2574); Region: DUF2574; pfam10836 935296009725 Uncharacterized conserved protein [Function unknown]; Region: COG2850 935296009726 sensor kinase CusS; Provisional; Region: PRK09835 935296009727 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 935296009728 dimerization interface [polypeptide binding]; other site 935296009729 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 935296009730 dimer interface [polypeptide binding]; other site 935296009731 phosphorylation site [posttranslational modification] 935296009732 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 935296009733 ATP binding site [chemical binding]; other site 935296009734 Mg2+ binding site [ion binding]; other site 935296009735 G-X-G motif; other site 935296009736 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 935296009737 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 935296009738 active site 935296009739 phosphorylation site [posttranslational modification] 935296009740 intermolecular recognition site; other site 935296009741 dimerization interface [polypeptide binding]; other site 935296009742 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 935296009743 DNA binding site [nucleotide binding] 935296009744 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 935296009745 Outer membrane efflux protein; Region: OEP; pfam02321 935296009746 Outer membrane efflux protein; Region: OEP; pfam02321 935296009747 periplasmic copper-binding protein; Provisional; Region: PRK09838 935296009748 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 935296009749 HlyD family secretion protein; Region: HlyD_3; pfam13437 935296009750 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 935296009751 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 935296009752 active site 935296009753 substrate binding site [chemical binding]; other site 935296009754 Mg2+ binding site [ion binding]; other site 935296009755 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 935296009756 Protein of unknown function DUF91; Region: DUF91; cl00709 935296009757 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 935296009758 active site 935296009759 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 935296009760 HNH endonuclease; Region: HNH_2; pfam13391 935296009761 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 935296009762 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 935296009763 P-loop; other site 935296009764 Magnesium ion binding site [ion binding]; other site 935296009765 replicative DNA helicase; Region: DnaB; TIGR00665 935296009766 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 935296009767 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 935296009768 Walker A motif; other site 935296009769 ATP binding site [chemical binding]; other site 935296009770 Walker B motif; other site 935296009771 DNA binding loops [nucleotide binding] 935296009772 ParB-like nuclease domain; Region: ParBc; cl02129 935296009773 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 935296009774 Helix-turn-helix domain; Region: HTH_36; pfam13730 935296009775 HipA N-terminal domain; Region: Couple_hipA; cl11853 935296009776 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 935296009777 HipA-like N-terminal domain; Region: HipA_N; pfam07805 935296009778 HipA-like C-terminal domain; Region: HipA_C; pfam07804 935296009779 hypothetical protein; Provisional; Region: PRK09945 935296009780 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 935296009781 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 935296009782 Autotransporter beta-domain; Region: Autotransporter; pfam03797 935296009783 Domain of unknown function (DUF1845); Region: DUF1845; cl07481 935296009784 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 935296009785 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 935296009786 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 935296009787 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 935296009788 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 935296009789 integrating conjugative element protein, PFL_4695 family; Region: ICE_PFL_4695; TIGR03765 935296009790 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 935296009791 AAA-like domain; Region: AAA_10; pfam12846 935296009792 Domain of unknown function (DUF4400); Region: DUF4400; cl14023 935296009793 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; cl19622 935296009794 Protein of unknown function (DUF3262); Region: DUF3262; pfam11660 935296009795 Protein of unknown function (DUF2976); Region: DUF2976; cl12739 935296009796 cellulose synthase-like protein; Region: PLN02248 935296009797 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 935296009798 Restriction endonuclease; Region: Mrr_cat; cl19295 935296009799 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; cl18944 935296009800 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 935296009801 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 935296009802 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 935296009803 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 935296009804 Methyltransferase domain; Region: Methyltransf_26; pfam13659 935296009805 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional; Region: PRK11331 935296009806 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; cl18944 935296009807 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 935296009808 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 935296009809 Integrase core domain; Region: rve_3; pfam13683 935296009810 HTH-like domain; Region: HTH_21; pfam13276 935296009811 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 935296009812 HNH endonuclease; Region: HNH_2; pfam13391 935296009813 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 935296009814 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 935296009815 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 935296009816 Putative helicase; Region: TraI_2; pfam07514 935296009817 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 935296009818 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 935296009819 Phage integrase, N-terminal SAM-like domain; Region: Phage_int_SAM_4; cl17873 935296009820 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 935296009821 active site 935296009822 catalytic residues [active] 935296009823 DNA binding site [nucleotide binding] 935296009824 Int/Topo IB signature motif; other site 935296009825 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 935296009826 active site clefts [active] 935296009827 zinc binding site [ion binding]; other site 935296009828 dimer interface [polypeptide binding]; other site 935296009829 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 935296009830 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 935296009831 Sulfate transporter family; Region: Sulfate_transp; cl19250 935296009832 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 935296009833 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 935296009834 putative NAD(P) binding site [chemical binding]; other site 935296009835 putative substrate binding site [chemical binding]; other site 935296009836 catalytic Zn binding site [ion binding]; other site 935296009837 structural Zn binding site [ion binding]; other site 935296009838 dimer interface [polypeptide binding]; other site 935296009839 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 935296009840 dimer interface [polypeptide binding]; other site 935296009841 conserved gate region; other site 935296009842 putative PBP binding loops; other site 935296009843 ABC-ATPase subunit interface; other site 935296009844 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 935296009845 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 935296009846 dimer interface [polypeptide binding]; other site 935296009847 conserved gate region; other site 935296009848 putative PBP binding loops; other site 935296009849 ABC-ATPase subunit interface; other site 935296009850 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 935296009851 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 935296009852 active site 935296009853 metal binding site [ion binding]; metal-binding site 935296009854 hexamer interface [polypeptide binding]; other site 935296009855 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 935296009856 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 935296009857 Walker A/P-loop; other site 935296009858 ATP binding site [chemical binding]; other site 935296009859 Q-loop/lid; other site 935296009860 ABC transporter signature motif; other site 935296009861 Walker B; other site 935296009862 D-loop; other site 935296009863 H-loop/switch region; other site 935296009864 TOBE domain; Region: TOBE_2; pfam08402 935296009865 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 935296009866 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 935296009867 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 935296009868 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 935296009869 putative substrate translocation pore; other site 935296009870 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 935296009871 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 935296009872 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 935296009873 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 935296009874 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 935296009875 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 935296009876 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 935296009877 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 935296009878 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 935296009879 PYR/PP interface [polypeptide binding]; other site 935296009880 dimer interface [polypeptide binding]; other site 935296009881 TPP binding site [chemical binding]; other site 935296009882 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 935296009883 Avirulence protein; Region: AvrB_AvrC; pfam05394 935296009884 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 935296009885 TPP-binding site [chemical binding]; other site 935296009886 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 935296009887 substrate binding site [chemical binding]; other site 935296009888 ATP binding site [chemical binding]; other site 935296009889 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 935296009890 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 935296009891 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 935296009892 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 935296009893 putative active site [active] 935296009894 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 935296009895 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 935296009896 tetrameric interface [polypeptide binding]; other site 935296009897 NAD binding site [chemical binding]; other site 935296009898 catalytic residues [active] 935296009899 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 935296009900 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 935296009901 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 935296009902 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 935296009903 Walker A motif; other site 935296009904 ATP binding site [chemical binding]; other site 935296009905 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 935296009906 lipopolysaccharide ABC transporter permease LptF; Provisional; Region: PRK15120 935296009907 multifunctional aminopeptidase A; Provisional; Region: PRK00913 935296009908 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 935296009909 interface (dimer of trimers) [polypeptide binding]; other site 935296009910 Substrate-binding/catalytic site; other site 935296009911 Zn-binding sites [ion binding]; other site 935296009912 DNA polymerase III subunit chi; Validated; Region: PRK05728 935296009913 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 935296009914 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 935296009915 active site 935296009916 HIGH motif; other site 935296009917 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 935296009918 KMSKS motif; other site 935296009919 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 935296009920 tRNA binding surface [nucleotide binding]; other site 935296009921 anticodon binding site; other site 935296009922 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 935296009923 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 935296009924 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296009925 Coenzyme A binding pocket [chemical binding]; other site 935296009926 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 935296009927 dinuclear metal binding motif [ion binding]; other site 935296009928 RNase E inhibitor protein; Provisional; Region: PRK11191 935296009929 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 935296009930 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 935296009931 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 935296009932 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 935296009933 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 935296009934 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 935296009935 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 935296009936 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 935296009937 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 935296009938 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 935296009939 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 935296009940 homotrimer interaction site [polypeptide binding]; other site 935296009941 putative active site [active] 935296009942 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 935296009943 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 935296009944 active site 935296009945 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 935296009946 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 935296009947 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 935296009948 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 935296009949 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 935296009950 motif II; other site 935296009951 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 935296009952 trehalose repressor; Provisional; Region: treR; PRK09492 935296009953 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 935296009954 DNA binding site [nucleotide binding] 935296009955 domain linker motif; other site 935296009956 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 935296009957 dimerization interface [polypeptide binding]; other site 935296009958 ligand binding site [chemical binding]; other site 935296009959 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 935296009960 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 935296009961 active site turn [active] 935296009962 phosphorylation site [posttranslational modification] 935296009963 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 935296009964 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 935296009965 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 935296009966 Ca binding site [ion binding]; other site 935296009967 active site 935296009968 catalytic site [active] 935296009969 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 935296009970 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; cl17295 935296009971 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 935296009972 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 935296009973 NAD binding site [chemical binding]; other site 935296009974 sugar binding site [chemical binding]; other site 935296009975 divalent metal binding site [ion binding]; other site 935296009976 tetramer (dimer of dimers) interface [polypeptide binding]; other site 935296009977 dimer interface [polypeptide binding]; other site 935296009978 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 935296009979 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 935296009980 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 935296009981 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 935296009982 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 935296009983 ATP cone domain; Region: ATP-cone; pfam03477 935296009984 Class III ribonucleotide reductase; Region: RNR_III; cd01675 935296009985 effector binding site; other site 935296009986 active site 935296009987 Zn binding site [ion binding]; other site 935296009988 glycine loop; other site 935296009989 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; PRK11121 935296009990 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 935296009991 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 935296009992 HTH domain; Region: HTH_11; pfam08279 935296009993 Mga helix-turn-helix domain; Region: Mga; pfam05043 935296009994 PRD domain; Region: PRD; pfam00874 935296009995 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 935296009996 active site 935296009997 P-loop; other site 935296009998 phosphorylation site [posttranslational modification] 935296009999 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 935296010000 active site 935296010001 phosphorylation site [posttranslational modification] 935296010002 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 935296010003 conserved hypothetical protein EF_0839/AHA_3917; Region: EF_0839; TIGR03581 935296010004 uncharacterized pyridoxal phosphate-dependent enzyme; Region: selA_rel; TIGR01437 935296010005 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 935296010006 catalytic residue [active] 935296010007 probable amidohydrolase EF_0837/AHA_3915; Region: EF_0837; TIGR03583 935296010008 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 935296010009 active site 935296010010 Domain of unknown function (DUF4310); Region: DUF4310; pfam14187 935296010011 conserved hypothetical protein EF_0832/AHA_3913; Region: EF_0832; TIGR03580 935296010012 Domain of unknown function (DUF4312); Region: DUF4312; cl11917 935296010013 Glycine-rich SFCGS; Region: Gly_rich_SFCGS; pfam14272 935296010014 PRD domain protein EF_0829/AHA_3910; Region: EF_0829; TIGR03582 935296010015 Cytochrome b562; Region: Cytochrom_B562; cl01546 935296010016 peptidase PmbA; Provisional; Region: PRK11040 935296010017 hypothetical protein; Provisional; Region: PRK05255 935296010018 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 935296010019 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296010020 Coenzyme A binding pocket [chemical binding]; other site 935296010021 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 935296010022 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 935296010023 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 935296010024 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 935296010025 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 935296010026 AMP binding site [chemical binding]; other site 935296010027 metal binding site [ion binding]; metal-binding site 935296010028 active site 935296010029 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 935296010030 TM-ABC transporter signature motif; other site 935296010031 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 935296010032 TM-ABC transporter signature motif; other site 935296010033 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 935296010034 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 935296010035 Walker A/P-loop; other site 935296010036 ATP binding site [chemical binding]; other site 935296010037 Q-loop/lid; other site 935296010038 ABC transporter signature motif; other site 935296010039 Walker B; other site 935296010040 D-loop; other site 935296010041 H-loop/switch region; other site 935296010042 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 935296010043 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 935296010044 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 935296010045 putative ligand binding site [chemical binding]; other site 935296010046 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 935296010047 dimer interface [polypeptide binding]; other site 935296010048 substrate binding site [chemical binding]; other site 935296010049 metal binding sites [ion binding]; metal-binding site 935296010050 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 935296010051 dimerization interface [polypeptide binding]; other site 935296010052 putative active site pocket [active] 935296010053 putative catalytic residue [active] 935296010054 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 935296010055 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 935296010056 Family of unknown function (DUF490); Region: DUF490; pfam04357 935296010057 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 935296010058 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 935296010059 Surface antigen; Region: Bac_surface_Ag; pfam01103 935296010060 methionine sulfoxide reductase A; Provisional; Region: PRK00058 935296010061 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 935296010062 Domain of unknown function DUF21; Region: DUF21; pfam01595 935296010063 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 935296010064 Transporter associated domain; Region: CorC_HlyC; smart01091 935296010065 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 935296010066 Predicted transcriptional regulator [General function prediction only]; Region: COG3054 935296010067 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 935296010068 active site 935296010069 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 935296010070 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 935296010071 active site 935296010072 metal binding site [ion binding]; metal-binding site 935296010073 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 935296010074 Predicted transcriptional regulators [Transcription]; Region: COG1733 935296010075 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 935296010076 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 935296010077 NADP binding site [chemical binding]; other site 935296010078 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 935296010079 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 935296010080 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296010081 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296010082 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 935296010083 EamA-like transporter family; Region: EamA; pfam00892 935296010084 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 935296010085 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 935296010086 Hemerythrin-like domain; Region: Hr-like; cd12108 935296010087 Fe binding site [ion binding]; other site 935296010088 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 935296010089 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 935296010090 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 935296010091 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 935296010092 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 935296010093 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 935296010094 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 935296010095 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 935296010096 EamA-like transporter family; Region: EamA; pfam00892 935296010097 EamA-like transporter family; Region: EamA; pfam00892 935296010098 ribosomal protein L9; Region: L9; TIGR00158 935296010099 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 935296010100 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 935296010101 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 935296010102 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 935296010103 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 935296010104 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935296010105 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 935296010106 putative substrate translocation pore; other site 935296010107 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 935296010108 intersubunit interface [polypeptide binding]; other site 935296010109 active site 935296010110 Zn2+ binding site [ion binding]; other site 935296010111 L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13209 935296010112 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 935296010113 AP (apurinic/apyrimidinic) site pocket; other site 935296010114 DNA interaction; other site 935296010115 Metal-binding active site; metal-binding site 935296010116 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 935296010117 active site 935296010118 dimer interface [polypeptide binding]; other site 935296010119 magnesium binding site [ion binding]; other site 935296010120 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 935296010121 active site 935296010122 phosphorylation site [posttranslational modification] 935296010123 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 935296010124 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 935296010125 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 935296010126 transcriptional repressor UlaR; Provisional; Region: PRK13509 935296010127 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 935296010128 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 935296010129 esterase; Provisional; Region: PRK10566 935296010130 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 935296010131 putative biofilm stress and motility protein A; Provisional; Region: PRK14864 935296010132 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 935296010133 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 935296010134 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 935296010135 active site 935296010136 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 935296010137 metabolite-proton symporter; Region: 2A0106; TIGR00883 935296010138 putative substrate translocation pore; other site 935296010139 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 935296010140 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 935296010141 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 935296010142 exoribonuclease R; Provisional; Region: PRK11642 935296010143 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 935296010144 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 935296010145 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 935296010146 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 935296010147 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 935296010148 RNA binding site [nucleotide binding]; other site 935296010149 transcriptional repressor NsrR; Provisional; Region: PRK11014 935296010150 Rrf2 family protein; Region: rrf2_super; TIGR00738 935296010151 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 935296010152 IMP binding site; other site 935296010153 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 935296010154 HflC protein; Region: hflC; TIGR01932 935296010155 High frequency of lysogenization C (HflC) family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_HflC; cd03405 935296010156 FtsH protease regulator HflK; Provisional; Region: PRK10930 935296010157 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 935296010158 High frequency of lysogenization K (HflK) family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_HflK; cd03404 935296010159 GTPase HflX; Provisional; Region: PRK11058 935296010160 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 935296010161 HflX GTPase family; Region: HflX; cd01878 935296010162 G1 box; other site 935296010163 GTP/Mg2+ binding site [chemical binding]; other site 935296010164 Switch I region; other site 935296010165 G2 box; other site 935296010166 G3 box; other site 935296010167 Switch II region; other site 935296010168 G4 box; other site 935296010169 G5 box; other site 935296010170 bacterial Hfq-like; Region: Hfq; cd01716 935296010171 hexamer interface [polypeptide binding]; other site 935296010172 Sm1 motif; other site 935296010173 RNA binding site [nucleotide binding]; other site 935296010174 Sm2 motif; other site 935296010175 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 935296010176 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 935296010177 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 935296010178 ATP binding site [chemical binding]; other site 935296010179 Mg2+ binding site [ion binding]; other site 935296010180 G-X-G motif; other site 935296010181 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 935296010182 ATP binding site [chemical binding]; other site 935296010183 MutL C terminal dimerization domain; Region: MutL_C; pfam08676 935296010184 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 935296010185 AMIN domain; Region: AMIN; pfam11741 935296010186 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 935296010187 active site 935296010188 metal binding site [ion binding]; metal-binding site 935296010189 ADP-binding protein; Provisional; Region: PRK10646 935296010190 putative carbohydrate kinase; Provisional; Region: PRK10565 935296010191 Uncharacterized conserved protein [Function unknown]; Region: COG0062 935296010192 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 935296010193 putative substrate binding site [chemical binding]; other site 935296010194 putative ATP binding site [chemical binding]; other site 935296010195 epoxyqueuosine reductase; Region: TIGR00276 935296010196 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 935296010197 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 935296010198 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 935296010199 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 935296010200 substrate binding pocket [chemical binding]; other site 935296010201 membrane-bound complex binding site; other site 935296010202 hinge residues; other site 935296010203 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 935296010204 catalytic site [active] 935296010205 putative active site [active] 935296010206 putative substrate binding site [chemical binding]; other site 935296010207 dimer interface [polypeptide binding]; other site 935296010208 GTPase RsgA; Reviewed; Region: PRK12288 935296010209 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 935296010210 RNA binding site [nucleotide binding]; other site 935296010211 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 935296010212 GTPase/Zn-binding domain interface [polypeptide binding]; other site 935296010213 GTP/Mg2+ binding site [chemical binding]; other site 935296010214 G4 box; other site 935296010215 G5 box; other site 935296010216 G1 box; other site 935296010217 Switch I region; other site 935296010218 G2 box; other site 935296010219 G3 box; other site 935296010220 Switch II region; other site 935296010221 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 935296010222 putative mechanosensitive channel protein; Provisional; Region: PRK10929 935296010223 Protein-interacting V-domain of mammalian Alix and related domains; Region: V_Alix_like; cl14654 935296010224 putative YPXnL-motif binding site; other site 935296010225 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 935296010226 Mechanosensitive ion channel; Region: MS_channel; pfam00924 935296010227 inner membrane transporter YjeM; Provisional; Region: PRK15238 935296010228 poxB regulator PoxA; Provisional; Region: PRK09350 935296010229 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 935296010230 motif 1; other site 935296010231 dimer interface [polypeptide binding]; other site 935296010232 active site 935296010233 motif 2; other site 935296010234 motif 3; other site 935296010235 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 935296010236 L-aspartate oxidase; Provisional; Region: PRK06175 935296010237 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 935296010238 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 935296010239 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 935296010240 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 935296010241 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 935296010242 D-subunit interface [polypeptide binding]; other site 935296010243 Iron-sulfur protein interface; other site 935296010244 proximal quinone binding site [chemical binding]; other site 935296010245 distal quinone binding site [chemical binding]; other site 935296010246 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 935296010247 Iron-sulfur protein interface; other site 935296010248 proximal quinone binding site [chemical binding]; other site 935296010249 C-subunit interface; other site 935296010250 distal quinone binding site; other site 935296010251 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 935296010252 multidrug efflux system protein; Provisional; Region: PRK11431 935296010253 entericidin B membrane lipoprotein; Provisional; Region: PRK10081 935296010254 Entericidin EcnA/B family; Region: Entericidin; cl02322 935296010255 elongation factor P; Validated; Region: PRK00529 935296010256 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 935296010257 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 935296010258 RNA binding site [nucleotide binding]; other site 935296010259 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 935296010260 RNA binding site [nucleotide binding]; other site 935296010261 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 935296010262 Radical SAM superfamily; Region: Radical_SAM; pfam04055 935296010263 FeS/SAM binding site; other site 935296010264 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 935296010265 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 935296010266 DNA binding site [nucleotide binding] 935296010267 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 935296010268 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 935296010269 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 935296010270 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 935296010271 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 935296010272 PapC N-terminal domain; Region: PapC_N; pfam13954 935296010273 Outer membrane usher protein; Region: Usher; pfam00577 935296010274 PapC C-terminal domain; Region: PapC_C; pfam13953 935296010275 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 935296010276 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 935296010277 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 935296010278 HlyD family secretion protein; Region: HlyD_3; pfam13437 935296010279 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 935296010280 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 935296010281 putative active site [active] 935296010282 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 935296010283 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296010284 Walker A/P-loop; other site 935296010285 ATP binding site [chemical binding]; other site 935296010286 Q-loop/lid; other site 935296010287 ABC transporter signature motif; other site 935296010288 Walker B; other site 935296010289 D-loop; other site 935296010290 H-loop/switch region; other site 935296010291 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 935296010292 chaperonin GroEL; Reviewed; Region: groEL; PRK12850 935296010293 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 935296010294 ring oligomerisation interface [polypeptide binding]; other site 935296010295 ATP/Mg binding site [chemical binding]; other site 935296010296 stacking interactions; other site 935296010297 hinge regions; other site 935296010298 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 935296010299 oligomerisation interface [polypeptide binding]; other site 935296010300 mobile loop; other site 935296010301 roof hairpin; other site 935296010302 putative transporter; Provisional; Region: PRK11021 935296010303 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 935296010304 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 935296010305 Aspartase; Region: Aspartase; cd01357 935296010306 active sites [active] 935296010307 tetramer interface [polypeptide binding]; other site 935296010308 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 935296010309 divalent-cation tolerance protein CutA; Provisional; Region: PRK10645 935296010310 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 935296010311 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 935296010312 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 935296010313 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 935296010314 DsbD alpha interface [polypeptide binding]; other site 935296010315 catalytic residues [active] 935296010316 putative transcriptional regulator; Provisional; Region: PRK11640 935296010317 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 935296010318 PerC transcriptional activator; Region: PerC; pfam06069 935296010319 outer membrane protein PgaA; Provisional; Region: pgaA; PRK10049 935296010320 outer membrane N-deacetylase; Provisional; Region: pgaB; PRK14582 935296010321 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 935296010322 Hypothetical glycosyl hydrolase family 13; Region: GHL13; pfam14883 935296010323 N-glycosyltransferase; Provisional; Region: PRK11204 935296010324 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 935296010325 DXD motif; other site 935296010326 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 935296010327 PgaD-like protein; Region: PgaD; cl14676 935296010328 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 935296010329 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 935296010330 catalytic residues [active] 935296010331 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 935296010332 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 935296010333 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 935296010334 HSP70 interaction site [polypeptide binding]; other site 935296010335 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 935296010336 substrate binding site [polypeptide binding]; other site 935296010337 dimer interface [polypeptide binding]; other site 935296010338 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 935296010339 Plasmid stability protein; Region: Plasmid_stab_B; pfam10784 935296010340 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 935296010341 Mg binding site [ion binding]; other site 935296010342 nucleotide binding site [chemical binding]; other site 935296010343 putative protofilament interface [polypeptide binding]; other site 935296010344 melibiose:sodium symporter; Provisional; Region: PRK10429 935296010345 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 935296010346 alpha-galactosidase; Provisional; Region: PRK15076 935296010347 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 935296010348 NAD binding site [chemical binding]; other site 935296010349 sugar binding site [chemical binding]; other site 935296010350 divalent metal binding site [ion binding]; other site 935296010351 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 935296010352 dimer interface [polypeptide binding]; other site 935296010353 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 935296010354 Cupin domain; Region: Cupin_2; cl17218 935296010355 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296010356 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296010357 proline/glycine betaine transporter; Provisional; Region: PRK10642 935296010358 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 935296010359 putative substrate translocation pore; other site 935296010360 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 935296010361 hypothetical protein; Provisional; Region: PRK10220 935296010362 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 935296010363 PhnA protein; Region: PhnA; pfam03831 935296010364 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 935296010365 dimer interface [polypeptide binding]; other site 935296010366 phosphonate metabolism transcriptional regulator PhnF; Provisional; Region: PRK10079 935296010367 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935296010368 DNA-binding site [nucleotide binding]; DNA binding site 935296010369 UTRA domain; Region: UTRA; pfam07702 935296010370 Phosphonate metabolizm protein PhnG; Region: PhnG; pfam06754 935296010371 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 935296010372 Bacterial phosphonate metabolizm protein (PhnI); Region: PhnI; cl01456 935296010373 Phosphonate metabolizm protein PhnJ; Region: PhnJ; pfam06007 935296010374 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 935296010375 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935296010376 Walker A/P-loop; other site 935296010377 ATP binding site [chemical binding]; other site 935296010378 Q-loop/lid; other site 935296010379 ABC transporter signature motif; other site 935296010380 Walker B; other site 935296010381 D-loop; other site 935296010382 H-loop/switch region; other site 935296010383 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 935296010384 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 935296010385 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296010386 Walker A/P-loop; other site 935296010387 ATP binding site [chemical binding]; other site 935296010388 Q-loop/lid; other site 935296010389 ABC transporter signature motif; other site 935296010390 Walker B; other site 935296010391 D-loop; other site 935296010392 H-loop/switch region; other site 935296010393 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 935296010394 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 935296010395 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 935296010396 active site 935296010397 ribose 1,5-bisphosphokinase; Provisional; Region: PRK10078 935296010398 Guanylate kinase; Region: Guanylate_kin; pfam00625 935296010399 active site 935296010400 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 935296010401 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 935296010402 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 935296010403 dimerization interface [polypeptide binding]; other site 935296010404 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 935296010405 dimer interface [polypeptide binding]; other site 935296010406 phosphorylation site [posttranslational modification] 935296010407 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 935296010408 ATP binding site [chemical binding]; other site 935296010409 Mg2+ binding site [ion binding]; other site 935296010410 G-X-G motif; other site 935296010411 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 935296010412 active site 935296010413 phosphorylation site [posttranslational modification] 935296010414 intermolecular recognition site; other site 935296010415 dimerization interface [polypeptide binding]; other site 935296010416 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 935296010417 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 935296010418 Walker A/P-loop; other site 935296010419 ATP binding site [chemical binding]; other site 935296010420 Q-loop/lid; other site 935296010421 ABC transporter signature motif; other site 935296010422 Walker B; other site 935296010423 D-loop; other site 935296010424 H-loop/switch region; other site 935296010425 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 935296010426 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 935296010427 TM-ABC transporter signature motif; other site 935296010428 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 935296010429 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 935296010430 putative ligand binding site [chemical binding]; other site 935296010431 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 935296010432 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 935296010433 active site 935296010434 phosphorylation site [posttranslational modification] 935296010435 intermolecular recognition site; other site 935296010436 dimerization interface [polypeptide binding]; other site 935296010437 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 935296010438 DNA binding site [nucleotide binding] 935296010439 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 935296010440 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 935296010441 molybdopterin cofactor binding site; other site 935296010442 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 935296010443 molybdopterin cofactor binding site; other site 935296010444 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 935296010445 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 935296010446 acetyl-CoA synthetase; Provisional; Region: PRK00174 935296010447 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 935296010448 active site 935296010449 CoA binding site [chemical binding]; other site 935296010450 acyl-activating enzyme (AAE) consensus motif; other site 935296010451 AMP binding site [chemical binding]; other site 935296010452 acetate binding site [chemical binding]; other site 935296010453 Predicted membrane protein [Function unknown]; Region: COG3162 935296010454 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 935296010455 Na binding site [ion binding]; other site 935296010456 putative major fimbrial protein SthE; Provisional; Region: PRK15292 935296010457 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 935296010458 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 935296010459 Fimbrial protein; Region: Fimbrial; cl01416 935296010460 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 935296010461 PapC N-terminal domain; Region: PapC_N; pfam13954 935296010462 Outer membrane usher protein; Region: Usher; pfam00577 935296010463 PapC C-terminal domain; Region: PapC_C; pfam13953 935296010464 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 935296010465 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 935296010466 Fimbrial protein; Region: Fimbrial; cl01416 935296010467 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 935296010468 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 935296010469 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296010470 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296010471 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 935296010472 putative dimerization interface [polypeptide binding]; other site 935296010473 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 935296010474 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 935296010475 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 935296010476 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 935296010477 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 935296010478 putative C-terminal domain interface [polypeptide binding]; other site 935296010479 putative GSH binding site (G-site) [chemical binding]; other site 935296010480 putative dimer interface [polypeptide binding]; other site 935296010481 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 935296010482 putative N-terminal domain interface [polypeptide binding]; other site 935296010483 putative dimer interface [polypeptide binding]; other site 935296010484 putative substrate binding pocket (H-site) [chemical binding]; other site 935296010485 redox-sensitivie transcriptional activator SoxR; Provisional; Region: PRK15002 935296010486 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 935296010487 DNA binding residues [nucleotide binding] 935296010488 dimer interface [polypeptide binding]; other site 935296010489 [2Fe-2S] cluster binding site [ion binding]; other site 935296010490 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 935296010491 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296010492 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 935296010493 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 935296010494 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 935296010495 anti-adapter protein IraM; Provisional; Region: PRK09919 935296010496 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 935296010497 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 935296010498 substrate binding pocket [chemical binding]; other site 935296010499 membrane-bound complex binding site; other site 935296010500 hinge residues; other site 935296010501 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 935296010502 N-acetyl-D-glucosamine binding site [chemical binding]; other site 935296010503 catalytic residue [active] 935296010504 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 935296010505 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 935296010506 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 935296010507 dimer interface [polypeptide binding]; other site 935296010508 ssDNA binding site [nucleotide binding]; other site 935296010509 tetramer (dimer of dimers) interface [polypeptide binding]; other site 935296010510 putative single-stranded DNA-binding protein; Region: PHA01740 935296010511 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 935296010512 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 935296010513 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 935296010514 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 935296010515 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 935296010516 Uncharacterized conserved protein [Function unknown]; Region: COG0432 935296010517 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 935296010518 active site 935296010519 motif I; other site 935296010520 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 935296010521 motif II; other site 935296010522 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 935296010523 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 935296010524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296010525 homodimer interface [polypeptide binding]; other site 935296010526 catalytic residue [active] 935296010527 alanine racemase; Reviewed; Region: alr; PRK00053 935296010528 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 935296010529 active site 935296010530 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 935296010531 substrate binding site [chemical binding]; other site 935296010532 catalytic residues [active] 935296010533 dimer interface [polypeptide binding]; other site 935296010534 replicative DNA helicase; Provisional; Region: PRK08006 935296010535 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 935296010536 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 935296010537 Walker A motif; other site 935296010538 ATP binding site [chemical binding]; other site 935296010539 Walker B motif; other site 935296010540 DNA binding loops [nucleotide binding] 935296010541 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 935296010542 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 935296010543 NADP binding site [chemical binding]; other site 935296010544 dimer interface [polypeptide binding]; other site 935296010545 phage shock protein G; Reviewed; Region: pspG; PRK09459 935296010546 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 935296010547 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 935296010548 FMN binding site [chemical binding]; other site 935296010549 active site 935296010550 catalytic residues [active] 935296010551 substrate binding site [chemical binding]; other site 935296010552 Cupin domain; Region: Cupin_2; cl17218 935296010553 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 935296010554 metal binding site 2 [ion binding]; metal-binding site 935296010555 putative DNA binding helix; other site 935296010556 metal binding site 1 [ion binding]; metal-binding site 935296010557 dimer interface [polypeptide binding]; other site 935296010558 structural Zn2+ binding site [ion binding]; other site 935296010559 hypothetical protein; Provisional; Region: PRK10428 935296010560 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 935296010561 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 935296010562 LexA repressor; Validated; Region: PRK00215 935296010563 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 935296010564 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 935296010565 Catalytic site [active] 935296010566 Integral membrane diacylglycerol kinase; Region: DAGK_IM; cd14264 935296010567 putative active site [active] 935296010568 trimer interface [polypeptide binding]; other site 935296010569 putative active site [active] 935296010570 Zn binding site [ion binding]; other site 935296010571 Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]; Region: PlsB; COG2937 935296010572 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 935296010573 putative acyl-acceptor binding pocket; other site 935296010574 4-Hydroxybenzoate polyprenyltransferase; Region: PT_UbiA_COQ2; cd13959 935296010575 putative active site [active] 935296010576 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 935296010577 maltose regulon periplasmic protein; Provisional; Region: PRK10564 935296010578 maltoporin; Provisional; Region: lamB; PRK09360 935296010579 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 935296010580 trimer interface; other site 935296010581 sugar binding site [chemical binding]; other site 935296010582 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 935296010583 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 935296010584 Walker A/P-loop; other site 935296010585 ATP binding site [chemical binding]; other site 935296010586 Q-loop/lid; other site 935296010587 ABC transporter signature motif; other site 935296010588 Walker B; other site 935296010589 D-loop; other site 935296010590 H-loop/switch region; other site 935296010591 TOBE domain; Region: TOBE_2; pfam08402 935296010592 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 935296010593 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 935296010594 maltose transporter membrane protein; Provisional; Region: malF; PRK10999 935296010595 Maltose transport system permease protein MalF P2 domain; Region: MalF_P2; pfam14785 935296010596 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 935296010597 dimer interface [polypeptide binding]; other site 935296010598 conserved gate region; other site 935296010599 putative PBP binding loops; other site 935296010600 ABC-ATPase subunit interface; other site 935296010601 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 935296010602 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 935296010603 dimer interface [polypeptide binding]; other site 935296010604 conserved gate region; other site 935296010605 putative PBP binding loops; other site 935296010606 ABC-ATPase subunit interface; other site 935296010607 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 935296010608 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 935296010609 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 935296010610 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 935296010611 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 935296010612 homotrimer interaction site [polypeptide binding]; other site 935296010613 putative active site [active] 935296010614 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 935296010615 putative trimer interface [polypeptide binding]; other site 935296010616 putative active site [active] 935296010617 putative substrate binding site [chemical binding]; other site 935296010618 putative CoA binding site [chemical binding]; other site 935296010619 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 935296010620 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 935296010621 active site 935296010622 dimer interface [polypeptide binding]; other site 935296010623 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 935296010624 dimer interface [polypeptide binding]; other site 935296010625 active site 935296010626 aspartate kinase III; Validated; Region: PRK09084 935296010627 AAK_AKiii-LysC-EC: Amino Acid Kinase Superfamily (AAK), AKiii-LysC-EC: this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKIII. AKIII is a monofunctional class enzyme (LysC) found in some...; Region: AAK_AKiii-LysC-EC; cd04258 935296010628 nucleotide binding site [chemical binding]; other site 935296010629 putative catalytic residues [active] 935296010630 aspartate binding site [chemical binding]; other site 935296010631 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 935296010632 lysine allosteric regulatory site; other site 935296010633 dimer interface [polypeptide binding]; other site 935296010634 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 935296010635 dimer interface [polypeptide binding]; other site 935296010636 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 935296010637 Uncharacterized conserved protein [Function unknown]; Region: RtcB; COG1690 935296010638 tRNA-splicing ligase RtcB; Region: RtcB; pfam01139 935296010639 Uncharacterized prokaryotic subgroup of the stomatin-like proteins (slipins) family; belonging to the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_eoslipins_u2; cd13438 935296010640 prohibitin homologues; Region: PHB; smart00244 935296010641 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 935296010642 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 935296010643 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 935296010644 Walker A motif; other site 935296010645 ATP binding site [chemical binding]; other site 935296010646 Walker B motif; other site 935296010647 arginine finger; other site 935296010648 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 935296010649 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 935296010650 non-specific DNA binding site [nucleotide binding]; other site 935296010651 salt bridge; other site 935296010652 sequence-specific DNA binding site [nucleotide binding]; other site 935296010653 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 935296010654 hypothetical protein; Provisional; Region: PRK10515 935296010655 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 935296010656 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 935296010657 RNA binding surface [nucleotide binding]; other site 935296010658 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 935296010659 probable active site [active] 935296010660 Protein of unknown function (DUF2543); Region: DUF2543; pfam10820 935296010661 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 935296010662 active site pocket [active] 935296010663 oxyanion hole [active] 935296010664 catalytic triad [active] 935296010665 active site nucleophile [active] 935296010666 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 935296010667 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 935296010668 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 935296010669 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 935296010670 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 935296010671 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 935296010672 substrate binding pocket [chemical binding]; other site 935296010673 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 935296010674 B12 binding site [chemical binding]; other site 935296010675 cobalt ligand [ion binding]; other site 935296010676 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 935296010677 transcriptional repressor IclR; Provisional; Region: PRK11569 935296010678 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 935296010679 Bacterial transcriptional regulator; Region: IclR; pfam01614 935296010680 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 935296010681 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 935296010682 tetramer interface [polypeptide binding]; other site 935296010683 active site 935296010684 Mg2+/Mn2+ binding site [ion binding]; other site 935296010685 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 935296010686 active site 935296010687 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 935296010688 proposed active site lysine [active] 935296010689 conserved cys residue [active] 935296010690 hypothetical protein; Provisional; Region: PRK10039 935296010691 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 935296010692 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 935296010693 purine monophosphate binding site [chemical binding]; other site 935296010694 dimer interface [polypeptide binding]; other site 935296010695 putative catalytic residues [active] 935296010696 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 935296010697 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 935296010698 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 935296010699 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 935296010700 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 935296010701 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 935296010702 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 935296010703 active site 935296010704 phosphorylation site [posttranslational modification] 935296010705 intermolecular recognition site; other site 935296010706 dimerization interface [polypeptide binding]; other site 935296010707 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 935296010708 Walker A motif; other site 935296010709 ATP binding site [chemical binding]; other site 935296010710 Walker B motif; other site 935296010711 arginine finger; other site 935296010712 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 935296010713 active site 935296010714 metal binding site [ion binding]; metal-binding site 935296010715 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 935296010716 sensor protein ZraS; Provisional; Region: PRK10364 935296010717 Sensory domain of two-component sensor kinase; Region: Cache_3; pfam14827 935296010718 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 935296010719 dimer interface [polypeptide binding]; other site 935296010720 phosphorylation site [posttranslational modification] 935296010721 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 935296010722 ATP binding site [chemical binding]; other site 935296010723 Mg2+ binding site [ion binding]; other site 935296010724 G-X-G motif; other site 935296010725 zinc resistance protein; Provisional; Region: zraP; PRK11546 935296010726 dimer interface [polypeptide binding]; other site 935296010727 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 935296010728 histone-like DNA-binding protein HU; Region: HU; cd13831 935296010729 dimer interface [polypeptide binding]; other site 935296010730 DNA binding site [nucleotide binding] 935296010731 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 935296010732 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 935296010733 Active_site [active] 935296010734 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 935296010735 substrate binding site [chemical binding]; other site 935296010736 active site 935296010737 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 935296010738 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 935296010739 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 935296010740 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 935296010741 putative NADH binding site [chemical binding]; other site 935296010742 putative active site [active] 935296010743 nudix motif; other site 935296010744 putative metal binding site [ion binding]; other site 935296010745 Regulator of sigma D [Transcription]; Region: Rsd; COG3160 935296010746 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 935296010747 ThiC-associated domain; Region: ThiC-associated; pfam13667 935296010748 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 935296010749 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 935296010750 thiamine phosphate binding site [chemical binding]; other site 935296010751 active site 935296010752 pyrophosphate binding site [ion binding]; other site 935296010753 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 935296010754 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 935296010755 ATP binding site [chemical binding]; other site 935296010756 substrate interface [chemical binding]; other site 935296010757 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 935296010758 ThiS interaction site; other site 935296010759 putative active site [active] 935296010760 tetramer interface [polypeptide binding]; other site 935296010761 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 935296010762 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 935296010763 FeS/SAM binding site; other site 935296010764 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 935296010765 Cache domain; Region: Cache_1; pfam02743 935296010766 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 935296010767 metal binding site [ion binding]; metal-binding site 935296010768 active site 935296010769 I-site; other site 935296010770 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 935296010771 active site 935296010772 P-loop; other site 935296010773 phosphorylation site [posttranslational modification] 935296010774 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 935296010775 methionine cluster; other site 935296010776 active site 935296010777 phosphorylation site [posttranslational modification] 935296010778 metal binding site [ion binding]; metal-binding site 935296010779 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 935296010780 Largest subunit (beta') of bacterial DNA-dependent RNA polymerase (RNAP), N-terminal domain; Region: RNAP_beta'_N; cd01609 935296010781 beta and beta' interface [polypeptide binding]; other site 935296010782 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 935296010783 beta' and sigma factor interface [polypeptide binding]; other site 935296010784 Zn-binding [ion binding]; other site 935296010785 active site region [active] 935296010786 catalytic site [active] 935296010787 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 935296010788 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 935296010789 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 935296010790 G-loop; other site 935296010791 DNA binding site [nucleotide binding] 935296010792 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 935296010793 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 935296010794 RPB12 interaction site [polypeptide binding]; other site 935296010795 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl19478 935296010796 RPB1 interaction site [polypeptide binding]; other site 935296010797 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 935296010798 RPB10 interaction site [polypeptide binding]; other site 935296010799 RPB11 interaction site [polypeptide binding]; other site 935296010800 RPB3 interaction site [polypeptide binding]; other site 935296010801 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 935296010802 core dimer interface [polypeptide binding]; other site 935296010803 peripheral dimer interface [polypeptide binding]; other site 935296010804 L10 interface [polypeptide binding]; other site 935296010805 L11 interface [polypeptide binding]; other site 935296010806 putative EF-Tu interaction site [polypeptide binding]; other site 935296010807 putative EF-G interaction site [polypeptide binding]; other site 935296010808 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 935296010809 23S rRNA interface [nucleotide binding]; other site 935296010810 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 935296010811 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 935296010812 mRNA/rRNA interface [nucleotide binding]; other site 935296010813 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 935296010814 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 935296010815 23S rRNA interface [nucleotide binding]; other site 935296010816 L7/L12 interface [polypeptide binding]; other site 935296010817 putative thiostrepton binding site; other site 935296010818 L25 interface [polypeptide binding]; other site 935296010819 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 935296010820 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 935296010821 putative homodimer interface [polypeptide binding]; other site 935296010822 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 935296010823 heterodimer interface [polypeptide binding]; other site 935296010824 homodimer interface [polypeptide binding]; other site 935296010825 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 935296010826 elongation factor Tu; Reviewed; Region: PRK00049 935296010827 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 935296010828 G1 box; other site 935296010829 GEF interaction site [polypeptide binding]; other site 935296010830 GTP/Mg2+ binding site [chemical binding]; other site 935296010831 Switch I region; other site 935296010832 G2 box; other site 935296010833 G3 box; other site 935296010834 Switch II region; other site 935296010835 G4 box; other site 935296010836 G5 box; other site 935296010837 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 935296010838 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 935296010839 Antibiotic Binding Site [chemical binding]; other site 935296010840 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 935296010841 ATP-binding site [chemical binding]; other site 935296010842 CoA-binding site [chemical binding]; other site 935296010843 Mg2+-binding site [ion binding]; other site 935296010844 Biotin operon repressor [Transcription]; Region: BirA; COG1654 935296010845 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 935296010846 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 935296010847 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 935296010848 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 935296010849 FAD binding domain; Region: FAD_binding_4; pfam01565 935296010850 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 935296010851 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 935296010852 potassium transporter; Provisional; Region: PRK10750 935296010853 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 935296010854 hypothetical protein; Provisional; Region: PRK11568 935296010855 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 935296010856 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 935296010857 proline dipeptidase; Provisional; Region: PRK13607 935296010858 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 935296010859 active site 935296010860 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 935296010861 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 935296010862 substrate binding site [chemical binding]; other site 935296010863 oxyanion hole (OAH) forming residues; other site 935296010864 trimer interface [polypeptide binding]; other site 935296010865 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 935296010866 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 935296010867 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 935296010868 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 935296010869 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 935296010870 dimer interface [polypeptide binding]; other site 935296010871 active site 935296010872 FMN reductase; Validated; Region: fre; PRK08051 935296010873 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 935296010874 FAD binding pocket [chemical binding]; other site 935296010875 FAD binding motif [chemical binding]; other site 935296010876 phosphate binding motif [ion binding]; other site 935296010877 beta-alpha-beta structure motif; other site 935296010878 NAD binding pocket [chemical binding]; other site 935296010879 3-octaprenyl-4-hydroxybenzoate decarboxylase; Provisional; Region: PRK10922 935296010880 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 935296010881 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 935296010882 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 935296010883 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 935296010884 active site 935296010885 twin-arginine protein translocation system subunit TatC; Provisional; Region: PRK10921 935296010886 sec-independent translocase; Provisional; Region: PRK01770 935296010887 sec-independent translocase; Provisional; Region: tatB; PRK00404 935296010888 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 935296010889 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 935296010890 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 935296010891 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 935296010892 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 935296010893 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 935296010894 S-adenosylmethionine binding site [chemical binding]; other site 935296010895 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 935296010896 DNA recombination protein RmuC; Provisional; Region: PRK10361 935296010897 RmuC family; Region: RmuC; pfam02646 935296010898 uridine phosphorylase; Provisional; Region: PRK11178 935296010899 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 935296010900 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 935296010901 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 935296010902 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 935296010903 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 935296010904 THF binding site; other site 935296010905 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 935296010906 substrate binding site [chemical binding]; other site 935296010907 THF binding site; other site 935296010908 zinc-binding site [ion binding]; other site 935296010909 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 935296010910 EamA-like transporter family; Region: EamA; pfam00892 935296010911 putative hydrolase; Provisional; Region: PRK10976 935296010912 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 935296010913 active site 935296010914 motif I; other site 935296010915 motif II; other site 935296010916 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 935296010917 lysophospholipase L2; Provisional; Region: PRK10749 935296010918 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 935296010919 homoserine/homoserine lactone efflux protein; Provisional; Region: rhtB; PRK10520 935296010920 hypothetical protein; Provisional; Region: PRK09956 935296010921 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 935296010922 threonine efflux system; Provisional; Region: PRK10229 935296010923 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 935296010924 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 935296010925 ATP binding site [chemical binding]; other site 935296010926 putative Mg++ binding site [ion binding]; other site 935296010927 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 935296010928 nucleotide binding region [chemical binding]; other site 935296010929 ATP-binding site [chemical binding]; other site 935296010930 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 935296010931 HRDC domain; Region: HRDC; pfam00570 935296010932 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 935296010933 dimerization interface [polypeptide binding]; other site 935296010934 substrate binding site [chemical binding]; other site 935296010935 active site 935296010936 calcium binding site [ion binding]; other site 935296010937 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 935296010938 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 935296010939 CoenzymeA binding site [chemical binding]; other site 935296010940 subunit interaction site [polypeptide binding]; other site 935296010941 PHB binding site; other site 935296010942 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 935296010943 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 935296010944 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 935296010945 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 935296010946 Cl binding site [ion binding]; other site 935296010947 oligomer interface [polypeptide binding]; other site 935296010948 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 935296010949 Part of AAA domain; Region: AAA_19; pfam13245 935296010950 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 935296010951 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 935296010952 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 935296010953 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 935296010954 motif II; other site 935296010955 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 935296010956 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 935296010957 active site 935296010958 Int/Topo IB signature motif; other site 935296010959 hypothetical protein; Provisional; Region: PRK10963 935296010960 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 935296010961 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 935296010962 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 935296010963 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 935296010964 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 935296010965 putative iron binding site [ion binding]; other site 935296010966 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 935296010967 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 935296010968 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 935296010969 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 935296010970 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 935296010971 domain interfaces; other site 935296010972 active site 935296010973 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 935296010974 active site 935296010975 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 935296010976 HemY protein N-terminus; Region: HemY_N; pfam07219 935296010977 putative transport protein YifK; Provisional; Region: PRK10746 935296010978 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 935296010979 putative common antigen polymerase; Provisional; Region: PRK02975 935296010980 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 935296010981 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 935296010982 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 935296010983 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 935296010984 inhibitor-cofactor binding pocket; inhibition site 935296010985 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296010986 catalytic residue [active] 935296010987 TDP-fucosamine acetyltransferase; Provisional; Region: PRK10975 935296010988 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 935296010989 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 935296010990 substrate binding site; other site 935296010991 tetramer interface; other site 935296010992 dTDP-glucose 4,6-dehydratase; Provisional; Region: PRK10217 935296010993 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 935296010994 NAD binding site [chemical binding]; other site 935296010995 substrate binding site [chemical binding]; other site 935296010996 homodimer interface [polypeptide binding]; other site 935296010997 active site 935296010998 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 935296010999 UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; Region: UDPG_MGDP_dh_N; pfam03721 935296011000 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 935296011001 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 935296011002 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 935296011003 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 935296011004 homodimer interface [polypeptide binding]; other site 935296011005 active site 935296011006 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 935296011007 Chain length determinant protein; Region: Wzz; pfam02706 935296011008 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 935296011009 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 935296011010 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 935296011011 Mg++ binding site [ion binding]; other site 935296011012 putative catalytic motif [active] 935296011013 substrate binding site [chemical binding]; other site 935296011014 transcription termination factor Rho; Provisional; Region: rho; PRK09376 935296011015 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 935296011016 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 935296011017 RNA binding site [nucleotide binding]; other site 935296011018 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 935296011019 multimer interface [polypeptide binding]; other site 935296011020 Walker A motif; other site 935296011021 ATP binding site [chemical binding]; other site 935296011022 Walker B motif; other site 935296011023 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 935296011024 catalytic residues [active] 935296011025 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 935296011026 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 935296011027 ATP binding site [chemical binding]; other site 935296011028 Mg++ binding site [ion binding]; other site 935296011029 motif III; other site 935296011030 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 935296011031 nucleotide binding region [chemical binding]; other site 935296011032 ATP-binding site [chemical binding]; other site 935296011033 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 935296011034 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 935296011035 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296011036 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296011037 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 935296011038 substrate binding pocket [chemical binding]; other site 935296011039 dimerization interface [polypeptide binding]; other site 935296011040 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 935296011041 Protein of unknown function (DUF554); Region: DUF554; pfam04474 935296011042 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 935296011043 Part of AAA domain; Region: AAA_19; pfam13245 935296011044 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 935296011045 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 935296011046 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 935296011047 peptidyl-prolyl cis-trans isomerase C; Provisional; Region: PRK15441 935296011048 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 935296011049 ketol-acid reductoisomerase; Validated; Region: PRK05225 935296011050 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 935296011051 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 935296011052 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296011053 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 935296011054 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 935296011055 putative dimerization interface [polypeptide binding]; other site 935296011056 threonine dehydratase; Reviewed; Region: PRK09224 935296011057 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 935296011058 tetramer interface [polypeptide binding]; other site 935296011059 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296011060 catalytic residue [active] 935296011061 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 935296011062 putative Ile/Val binding site [chemical binding]; other site 935296011063 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 935296011064 putative Ile/Val binding site [chemical binding]; other site 935296011065 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 935296011066 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 935296011067 homodimer interface [polypeptide binding]; other site 935296011068 substrate-cofactor binding pocket; other site 935296011069 catalytic residue [active] 935296011070 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 935296011071 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 935296011072 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 935296011073 PYR/PP interface [polypeptide binding]; other site 935296011074 dimer interface [polypeptide binding]; other site 935296011075 TPP binding site [chemical binding]; other site 935296011076 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 935296011077 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 935296011078 TPP-binding site [chemical binding]; other site 935296011079 dimer interface [polypeptide binding]; other site 935296011080 putative ATP-dependent protease; Provisional; Region: PRK09862 935296011081 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 935296011082 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 935296011083 Walker A motif; other site 935296011084 ATP binding site [chemical binding]; other site 935296011085 Walker B motif; other site 935296011086 arginine finger; other site 935296011087 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 935296011088 hypothetical protein; Provisional; Region: PRK11027 935296011089 transcriptional regulator HdfR; Provisional; Region: PRK03601 935296011090 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296011091 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 935296011092 glutamate racemase; Provisional; Region: PRK00865 935296011093 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 935296011094 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 935296011095 N-terminal plug; other site 935296011096 ligand-binding site [chemical binding]; other site 935296011097 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 935296011098 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 935296011099 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 935296011100 S-adenosylmethionine binding site [chemical binding]; other site 935296011101 hypothetical protein; Provisional; Region: PRK11056 935296011102 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 935296011103 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935296011104 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 935296011105 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 935296011106 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935296011107 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 935296011108 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 935296011109 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296011110 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 935296011111 dimerization interface [polypeptide binding]; other site 935296011112 argininosuccinate lyase; Provisional; Region: PRK04833 935296011113 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 935296011114 active sites [active] 935296011115 tetramer interface [polypeptide binding]; other site 935296011116 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 935296011117 nucleotide binding site [chemical binding]; other site 935296011118 N-acetyl-L-glutamate binding site [chemical binding]; other site 935296011119 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 935296011120 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 935296011121 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 935296011122 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 935296011123 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 935296011124 metal binding site [ion binding]; metal-binding site 935296011125 putative dimer interface [polypeptide binding]; other site 935296011126 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 935296011127 zinc/cadmium-binding protein; Provisional; Region: PRK10306 935296011128 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 935296011129 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296011130 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 935296011131 active site 935296011132 intersubunit interactions; other site 935296011133 catalytic residue [active] 935296011134 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 935296011135 dimer interface [polypeptide binding]; other site 935296011136 active site 935296011137 metal binding site [ion binding]; metal-binding site 935296011138 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 935296011139 EamA-like transporter family; Region: EamA; pfam00892 935296011140 EamA-like transporter family; Region: EamA; pfam00892 935296011141 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 935296011142 FAD binding site [chemical binding]; other site 935296011143 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 935296011144 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 935296011145 putative catalytic residues [active] 935296011146 putative nucleotide binding site [chemical binding]; other site 935296011147 putative aspartate binding site [chemical binding]; other site 935296011148 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 935296011149 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 935296011150 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 935296011151 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 935296011152 homodimer interface [polypeptide binding]; other site 935296011153 substrate-cofactor binding pocket; other site 935296011154 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296011155 catalytic residue [active] 935296011156 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 935296011157 dimerization interface [polypeptide binding]; other site 935296011158 DNA binding site [nucleotide binding] 935296011159 corepressor binding sites; other site 935296011160 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 935296011161 primosome assembly protein PriA; Validated; Region: PRK05580 935296011162 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 935296011163 ATP binding site [chemical binding]; other site 935296011164 putative Mg++ binding site [ion binding]; other site 935296011165 helicase superfamily c-terminal domain; Region: HELICc; smart00490 935296011166 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 935296011167 DNA binding site [nucleotide binding] 935296011168 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 935296011169 domain linker motif; other site 935296011170 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 935296011171 dimerization interface [polypeptide binding]; other site 935296011172 ligand binding site [chemical binding]; other site 935296011173 cell division protein FtsN; Provisional; Region: PRK12757 935296011174 Sporulation related domain; Region: SPOR; pfam05036 935296011175 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 935296011176 active site 935296011177 HslU subunit interaction site [polypeptide binding]; other site 935296011178 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 935296011179 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 935296011180 Walker A motif; other site 935296011181 ATP binding site [chemical binding]; other site 935296011182 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 935296011183 Walker B motif; other site 935296011184 arginine finger; other site 935296011185 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 935296011186 1,4-Dihydroxy-2-naphthoate octaprenyltransferase; Region: PT_UbiA_UBIAD1; cd13962 935296011187 putative active site [active] 935296011188 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 935296011189 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 935296011190 active site 935296011191 ADP/pyrophosphate binding site [chemical binding]; other site 935296011192 dimerization interface [polypeptide binding]; other site 935296011193 allosteric effector site; other site 935296011194 fructose-1,6-bisphosphate binding site; other site 935296011195 ferrous iron efflux protein F; Reviewed; Region: fieF; PRK09509 935296011196 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 935296011197 dimer interface [polypeptide binding]; other site 935296011198 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 935296011199 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 935296011200 active site 935296011201 intermolecular recognition site; other site 935296011202 dimerization interface [polypeptide binding]; other site 935296011203 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 935296011204 DNA binding site [nucleotide binding] 935296011205 two-component sensor protein; Provisional; Region: cpxA; PRK09470 935296011206 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 935296011207 dimerization interface [polypeptide binding]; other site 935296011208 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 935296011209 dimer interface [polypeptide binding]; other site 935296011210 phosphorylation site [posttranslational modification] 935296011211 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 935296011212 ATP binding site [chemical binding]; other site 935296011213 Mg2+ binding site [ion binding]; other site 935296011214 G-X-G motif; other site 935296011215 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 935296011216 MOSC domain; Region: MOSC; pfam03473 935296011217 3-alpha domain; Region: 3-alpha; pfam03475 935296011218 superoxide dismutase; Provisional; Region: PRK10925 935296011219 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 935296011220 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 935296011221 Sugar transport protein; Region: Sugar_transport; cl19288 935296011222 transcriptional activator RhaR; Provisional; Region: PRK13502 935296011223 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 935296011224 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296011225 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296011226 transcriptional activator RhaS; Provisional; Region: PRK13503 935296011227 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 935296011228 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296011229 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296011230 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 935296011231 N- and C-terminal domain interface [polypeptide binding]; other site 935296011232 active site 935296011233 putative catalytic site [active] 935296011234 metal binding site [ion binding]; metal-binding site 935296011235 ATP binding site [chemical binding]; other site 935296011236 rhamnulokinase; Provisional; Region: rhaB; PRK10640 935296011237 carbohydrate binding site [chemical binding]; other site 935296011238 L-rhamnose isomerase; Provisional; Region: PRK01076 935296011239 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 935296011240 intersubunit interface [polypeptide binding]; other site 935296011241 active site 935296011242 Zn2+ binding site [ion binding]; other site 935296011243 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 935296011244 dimer interface [polypeptide binding]; other site 935296011245 active site 935296011246 metal binding site [ion binding]; metal-binding site 935296011247 L-rhamnose 1-epimerase; Region: YiiL_rotase; TIGR02625 935296011248 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 935296011249 D-galactonate transporter; Region: 2A0114; TIGR00893 935296011250 putative substrate translocation pore; other site 935296011251 Domain of unknown function (DUF386); Region: DUF386; cl01047 935296011252 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 935296011253 inhibitor site; inhibition site 935296011254 active site 935296011255 dimer interface [polypeptide binding]; other site 935296011256 catalytic residue [active] 935296011257 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 935296011258 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 935296011259 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 935296011260 substrate binding site [chemical binding]; other site 935296011261 dimer interface [polypeptide binding]; other site 935296011262 ATP binding site [chemical binding]; other site 935296011263 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 935296011264 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 935296011265 non-specific DNA binding site [nucleotide binding]; other site 935296011266 salt bridge; other site 935296011267 sequence-specific DNA binding site [nucleotide binding]; other site 935296011268 Cupin domain; Region: Cupin_2; cl17218 935296011269 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 935296011270 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 935296011271 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 935296011272 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 935296011273 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 935296011274 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 935296011275 molybdopterin cofactor binding site; other site 935296011276 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 935296011277 molybdopterin cofactor binding site; other site 935296011278 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 935296011279 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 935296011280 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 935296011281 formate dehydrogenase-O subunit gamma; Provisional; Region: PRK10639 935296011282 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 935296011283 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 935296011284 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 935296011285 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296011286 Coenzyme A binding pocket [chemical binding]; other site 935296011287 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 935296011288 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 935296011289 putative active site [active] 935296011290 dimerization interface [polypeptide binding]; other site 935296011291 putative tRNAtyr binding site [nucleotide binding]; other site 935296011292 hypothetical protein; Reviewed; Region: PRK01637 935296011293 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 935296011294 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 935296011295 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 935296011296 motif II; other site 935296011297 GTP-binding protein; Provisional; Region: PRK10218 935296011298 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 935296011299 G1 box; other site 935296011300 putative GEF interaction site [polypeptide binding]; other site 935296011301 GTP/Mg2+ binding site [chemical binding]; other site 935296011302 Switch I region; other site 935296011303 G2 box; other site 935296011304 G3 box; other site 935296011305 Switch II region; other site 935296011306 G4 box; other site 935296011307 G5 box; other site 935296011308 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 935296011309 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 935296011310 glutamine synthetase; Provisional; Region: glnA; PRK09469 935296011311 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 935296011312 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 935296011313 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 935296011314 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 935296011315 putative active site [active] 935296011316 heme pocket [chemical binding]; other site 935296011317 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 935296011318 dimer interface [polypeptide binding]; other site 935296011319 phosphorylation site [posttranslational modification] 935296011320 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 935296011321 ATP binding site [chemical binding]; other site 935296011322 Mg2+ binding site [ion binding]; other site 935296011323 G-X-G motif; other site 935296011324 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 935296011325 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 935296011326 active site 935296011327 phosphorylation site [posttranslational modification] 935296011328 intermolecular recognition site; other site 935296011329 dimerization interface [polypeptide binding]; other site 935296011330 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 935296011331 Walker A motif; other site 935296011332 ATP binding site [chemical binding]; other site 935296011333 Walker B motif; other site 935296011334 arginine finger; other site 935296011335 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 935296011336 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 935296011337 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 935296011338 FeS/SAM binding site; other site 935296011339 HemN C-terminal domain; Region: HemN_C; pfam06969 935296011340 Der GTPase activator; Provisional; Region: PRK05244 935296011341 Predicted GTPase [General function prediction only]; Region: COG0218 935296011342 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 935296011343 G1 box; other site 935296011344 GTP/Mg2+ binding site [chemical binding]; other site 935296011345 Switch I region; other site 935296011346 G2 box; other site 935296011347 G3 box; other site 935296011348 Switch II region; other site 935296011349 G4 box; other site 935296011350 G5 box; other site 935296011351 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 935296011352 DNA polymerase I; Provisional; Region: PRK05755 935296011353 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 935296011354 active site 935296011355 putative 5' ssDNA interaction site; other site 935296011356 metal binding site 3; metal-binding site 935296011357 metal binding site 1 [ion binding]; metal-binding site 935296011358 metal binding site 2 [ion binding]; metal-binding site 935296011359 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 935296011360 putative DNA binding site [nucleotide binding]; other site 935296011361 putative metal binding site [ion binding]; other site 935296011362 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 935296011363 active site 935296011364 catalytic site [active] 935296011365 substrate binding site [chemical binding]; other site 935296011366 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 935296011367 DNA binding site [nucleotide binding] 935296011368 active site 935296011369 catalytic site [active] 935296011370 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 935296011371 putative acyl-acceptor binding pocket; other site 935296011372 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 935296011373 catalytic residues [active] 935296011374 hinge region; other site 935296011375 alpha helical domain; other site 935296011376 serine/threonine protein kinase; Provisional; Region: PRK11768 935296011377 Phosphotransferase enzyme family; Region: APH; pfam01636 935296011378 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 935296011379 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 935296011380 GTP binding site; other site 935296011381 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 935296011382 Walker A motif; other site 935296011383 transcriptional regulator NanR; Provisional; Region: PRK03837 935296011384 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935296011385 DNA-binding site [nucleotide binding]; DNA binding site 935296011386 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 935296011387 putative transporter; Provisional; Region: PRK10504 935296011388 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 935296011389 putative substrate translocation pore; other site 935296011390 transcriptional repressor RbsR; Provisional; Region: PRK10423 935296011391 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 935296011392 DNA binding site [nucleotide binding] 935296011393 domain linker motif; other site 935296011394 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 935296011395 dimerization interface [polypeptide binding]; other site 935296011396 ligand binding site [chemical binding]; other site 935296011397 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 935296011398 substrate binding site [chemical binding]; other site 935296011399 dimer interface [polypeptide binding]; other site 935296011400 ATP binding site [chemical binding]; other site 935296011401 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 935296011402 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 935296011403 ligand binding site [chemical binding]; other site 935296011404 dimerization interface [polypeptide binding]; other site 935296011405 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 935296011406 TM-ABC transporter signature motif; other site 935296011407 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 935296011408 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 935296011409 Walker A/P-loop; other site 935296011410 ATP binding site [chemical binding]; other site 935296011411 Q-loop/lid; other site 935296011412 ABC transporter signature motif; other site 935296011413 Walker B; other site 935296011414 D-loop; other site 935296011415 H-loop/switch region; other site 935296011416 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 935296011417 D-ribose pyranase; Provisional; Region: PRK11797 935296011418 potassium transport protein Kup; Provisional; Region: trkD; PRK10745 935296011419 regulatory ATPase RavA; Provisional; Region: PRK13531 935296011420 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 935296011421 Walker A motif; other site 935296011422 ATP binding site [chemical binding]; other site 935296011423 Walker B motif; other site 935296011424 arginine finger; other site 935296011425 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 935296011426 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2425 935296011427 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 935296011428 metal ion-dependent adhesion site (MIDAS); other site 935296011429 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 935296011430 dimer interface [polypeptide binding]; other site 935296011431 active site 935296011432 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 935296011433 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 935296011434 putative DNA binding site [nucleotide binding]; other site 935296011435 putative Zn2+ binding site [ion binding]; other site 935296011436 AsnC family; Region: AsnC_trans_reg; pfam01037 935296011437 FMN-binding protein MioC; Provisional; Region: PRK09004 935296011438 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 935296011439 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 935296011440 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 935296011441 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 935296011442 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 935296011443 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 935296011444 S-adenosylmethionine binding site [chemical binding]; other site 935296011445 ATP synthase I chain; Region: ATP_synt_I; cl09170 935296011446 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 935296011447 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 935296011448 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 935296011449 F0F1 ATP synthase subunit B; Provisional; Region: PRK14471; cl17192 935296011450 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 935296011451 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 935296011452 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 935296011453 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 935296011454 beta subunit interaction interface [polypeptide binding]; other site 935296011455 Walker A motif; other site 935296011456 ATP binding site [chemical binding]; other site 935296011457 Walker B motif; other site 935296011458 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 935296011459 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 935296011460 core domain interface [polypeptide binding]; other site 935296011461 delta subunit interface [polypeptide binding]; other site 935296011462 epsilon subunit interface [polypeptide binding]; other site 935296011463 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 935296011464 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 935296011465 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 935296011466 alpha subunit interaction interface [polypeptide binding]; other site 935296011467 Walker A motif; other site 935296011468 ATP binding site [chemical binding]; other site 935296011469 Walker B motif; other site 935296011470 inhibitor binding site; inhibition site 935296011471 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 935296011472 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 935296011473 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 935296011474 gamma subunit interface [polypeptide binding]; other site 935296011475 epsilon subunit interface [polypeptide binding]; other site 935296011476 LBP interface [polypeptide binding]; other site 935296011477 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 935296011478 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 935296011479 Substrate binding site; other site 935296011480 Mg++ binding site; other site 935296011481 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 935296011482 active site 935296011483 substrate binding site [chemical binding]; other site 935296011484 CoA binding site [chemical binding]; other site 935296011485 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 935296011486 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 935296011487 glutaminase active site [active] 935296011488 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 935296011489 dimer interface [polypeptide binding]; other site 935296011490 active site 935296011491 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 935296011492 dimer interface [polypeptide binding]; other site 935296011493 active site 935296011494 phosphate ABC transporter periplasmic substrate-binding protein PstS; Provisional; Region: PRK10918 935296011495 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 935296011496 substrate binding pocket [chemical binding]; other site 935296011497 membrane-bound complex binding site; other site 935296011498 hinge residues; other site 935296011499 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 935296011500 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 935296011501 dimer interface [polypeptide binding]; other site 935296011502 conserved gate region; other site 935296011503 putative PBP binding loops; other site 935296011504 ABC-ATPase subunit interface; other site 935296011505 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 935296011506 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 935296011507 dimer interface [polypeptide binding]; other site 935296011508 conserved gate region; other site 935296011509 putative PBP binding loops; other site 935296011510 ABC-ATPase subunit interface; other site 935296011511 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 935296011512 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 935296011513 Walker A/P-loop; other site 935296011514 ATP binding site [chemical binding]; other site 935296011515 Q-loop/lid; other site 935296011516 ABC transporter signature motif; other site 935296011517 Walker B; other site 935296011518 D-loop; other site 935296011519 H-loop/switch region; other site 935296011520 transcriptional regulator PhoU; Provisional; Region: PRK11115 935296011521 PhoU domain; Region: PhoU; pfam01895 935296011522 PhoU domain; Region: PhoU; pfam01895 935296011523 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 935296011524 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 935296011525 maltoporin; Provisional; Region: lamB; PRK09360 935296011526 trimer interface; other site 935296011527 sugar binding site [chemical binding]; other site 935296011528 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 935296011529 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 935296011530 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819; cl19187 935296011531 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 935296011532 active site 935296011533 trimer interface [polypeptide binding]; other site 935296011534 allosteric site; other site 935296011535 active site lid [active] 935296011536 hexamer (dimer of trimers) interface [polypeptide binding]; other site 935296011537 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 935296011538 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 935296011539 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 935296011540 active site 935296011541 motif I; other site 935296011542 motif II; other site 935296011543 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 935296011544 Sulfate transporter family; Region: Sulfate_transp; cl19250 935296011545 Predicted flavoprotein [General function prediction only]; Region: COG0431 935296011546 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 935296011547 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 935296011548 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296011549 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 935296011550 substrate binding pocket [chemical binding]; other site 935296011551 dimerization interface [polypeptide binding]; other site 935296011552 multidrug efflux system protein MdtL; Provisional; Region: PRK10473 935296011553 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 935296011554 putative substrate translocation pore; other site 935296011555 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 935296011556 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 935296011557 trmE is a tRNA modification GTPase; Region: trmE; cd04164 935296011558 G1 box; other site 935296011559 GTP/Mg2+ binding site [chemical binding]; other site 935296011560 Switch I region; other site 935296011561 G2 box; other site 935296011562 Switch II region; other site 935296011563 G3 box; other site 935296011564 G4 box; other site 935296011565 G5 box; other site 935296011566 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 935296011567 membrane protein insertase; Provisional; Region: PRK01318 935296011568 YidC periplasmic domain; Region: YidC_periplas; pfam14849 935296011569 Preprotein translocase subunit YidC [Intracellular trafficking and secretion]; Region: YidC; COG0706 935296011570 ribonuclease P; Reviewed; Region: rnpA; PRK01732 935296011571 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 935296011572 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 935296011573 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 935296011574 Walker A motif; other site 935296011575 ATP binding site [chemical binding]; other site 935296011576 Walker B motif; other site 935296011577 arginine finger; other site 935296011578 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 935296011579 DnaA box-binding interface [nucleotide binding]; other site 935296011580 DNA polymerase III subunit beta; Validated; Region: PRK05643 935296011581 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 935296011582 putative DNA binding surface [nucleotide binding]; other site 935296011583 dimer interface [polypeptide binding]; other site 935296011584 beta-clamp/clamp loader binding surface; other site 935296011585 beta-clamp/translesion DNA polymerase binding surface; other site 935296011586 recF protein; Region: recf; TIGR00611 935296011587 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296011588 Walker A/P-loop; other site 935296011589 ATP binding site [chemical binding]; other site 935296011590 Q-loop/lid; other site 935296011591 ABC transporter signature motif; other site 935296011592 Walker B; other site 935296011593 D-loop; other site 935296011594 H-loop/switch region; other site 935296011595 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 935296011596 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 935296011597 ATP binding site [chemical binding]; other site 935296011598 Mg2+ binding site [ion binding]; other site 935296011599 G-X-G motif; other site 935296011600 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 935296011601 anchoring element; other site 935296011602 dimer interface [polypeptide binding]; other site 935296011603 ATP binding site [chemical binding]; other site 935296011604 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 935296011605 active site 935296011606 putative metal-binding site [ion binding]; other site 935296011607 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 935296011608 sugar phosphate phosphatase; Provisional; Region: PRK10513 935296011609 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 935296011610 active site 935296011611 motif I; other site 935296011612 motif II; other site 935296011613 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 935296011614 Surface antigen; Region: Bac_surface_Ag; pfam01103 935296011615 Transcriptional regulators [Transcription]; Region: FadR; COG2186 935296011616 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935296011617 DNA-binding site [nucleotide binding]; DNA binding site 935296011618 FCD domain; Region: FCD; pfam07729 935296011619 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 935296011620 Entner-Doudoroff aldolase; Region: eda; TIGR01182 935296011621 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 935296011622 active site 935296011623 intersubunit interface [polypeptide binding]; other site 935296011624 catalytic residue [active] 935296011625 galactonate dehydratase; Provisional; Region: PRK14017 935296011626 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 935296011627 putative active site pocket [active] 935296011628 putative metal binding site [ion binding]; other site 935296011629 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 935296011630 D-galactonate transporter; Region: 2A0114; TIGR00893 935296011631 putative substrate translocation pore; other site 935296011632 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 935296011633 hypothetical protein; Provisional; Region: PRK11616 935296011634 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 935296011635 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 935296011636 putative dimer interface [polypeptide binding]; other site 935296011637 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 935296011638 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 935296011639 putative dimer interface [polypeptide binding]; other site 935296011640 putative transporter; Validated; Region: PRK03818 935296011641 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 935296011642 TrkA-C domain; Region: TrkA_C; pfam02080 935296011643 TrkA-C domain; Region: TrkA_C; pfam02080 935296011644 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 935296011645 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 935296011646 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935296011647 DNA-binding site [nucleotide binding]; DNA binding site 935296011648 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 935296011649 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 935296011650 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 935296011651 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 935296011652 active site turn [active] 935296011653 phosphorylation site [posttranslational modification] 935296011654 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 935296011655 Glycoside Hydrolases Family 4; GlvA- and pagL-like glycosidases; Region: GH4_GlvA_pagL_like; cd05298 935296011656 NAD binding site [chemical binding]; other site 935296011657 sugar binding site [chemical binding]; other site 935296011658 divalent metal binding site [ion binding]; other site 935296011659 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 935296011660 dimer interface [polypeptide binding]; other site 935296011661 Domain of unknown function (DUF202); Region: DUF202; cl09954 935296011662 Domain of unknown function (DUF202); Region: DUF202; pfam02656 935296011663 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 935296011664 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 935296011665 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 935296011666 catalytic residue [active] 935296011667 permease DsdX; Provisional; Region: PRK09921 935296011668 GntP family permease; Region: GntP_permease; pfam02447 935296011669 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 935296011670 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296011671 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 935296011672 dimerization interface [polypeptide binding]; other site 935296011673 substrate binding pocket [chemical binding]; other site 935296011674 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 935296011675 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 935296011676 putative substrate translocation pore; other site 935296011677 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 935296011678 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 935296011679 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 935296011680 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296011681 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 935296011682 Coenzyme A binding pocket [chemical binding]; other site 935296011683 Toxin TisB, type I toxin-antitoxin system; Region: TisB_toxin; pfam13939 935296011684 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 935296011685 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 935296011686 PYR/PP interface [polypeptide binding]; other site 935296011687 dimer interface [polypeptide binding]; other site 935296011688 TPP binding site [chemical binding]; other site 935296011689 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 935296011690 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 935296011691 TPP-binding site [chemical binding]; other site 935296011692 dimer interface [polypeptide binding]; other site 935296011693 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 935296011694 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 935296011695 putative valine binding site [chemical binding]; other site 935296011696 dimer interface [polypeptide binding]; other site 935296011697 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 935296011698 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 935296011699 active site 935296011700 phosphorylation site [posttranslational modification] 935296011701 intermolecular recognition site; other site 935296011702 dimerization interface [polypeptide binding]; other site 935296011703 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 935296011704 DNA binding residues [nucleotide binding] 935296011705 dimerization interface [polypeptide binding]; other site 935296011706 sensory histidine kinase UhpB; Provisional; Region: PRK11644 935296011707 MASE1; Region: MASE1; pfam05231 935296011708 Histidine kinase; Region: HisKA_3; pfam07730 935296011709 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 935296011710 ATP binding site [chemical binding]; other site 935296011711 Mg2+ binding site [ion binding]; other site 935296011712 G-X-G motif; other site 935296011713 regulatory protein UhpC; Provisional; Region: PRK11663 935296011714 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 935296011715 putative substrate translocation pore; other site 935296011716 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 935296011717 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 935296011718 putative substrate translocation pore; other site 935296011719 Protein of unknown function (DUF1198); Region: DUF1198; pfam06711 935296011720 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 935296011721 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 935296011722 putative substrate translocation pore; other site 935296011723 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 935296011724 phosphonoacetaldehyde hydrolase; Region: phosphonatase; TIGR01422 935296011725 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 935296011726 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 935296011727 catalytic residue [active] 935296011728 transcriptional regulator protein; Region: phnR; TIGR03337 935296011729 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935296011730 DNA-binding site [nucleotide binding]; DNA binding site 935296011731 UTRA domain; Region: UTRA; pfam07702 935296011732 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 935296011733 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate binding protein; Region: PhnS; TIGR03227 935296011734 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT; Region: PhnT; TIGR03258 935296011735 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296011736 Walker A/P-loop; other site 935296011737 ATP binding site [chemical binding]; other site 935296011738 Q-loop/lid; other site 935296011739 ABC transporter signature motif; other site 935296011740 Walker B; other site 935296011741 D-loop; other site 935296011742 H-loop/switch region; other site 935296011743 TOBE domain; Region: TOBE_2; pfam08402 935296011744 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 935296011745 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 935296011746 dimer interface [polypeptide binding]; other site 935296011747 conserved gate region; other site 935296011748 putative PBP binding loops; other site 935296011749 ABC-ATPase subunit interface; other site 935296011750 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 935296011751 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 935296011752 dimer interface [polypeptide binding]; other site 935296011753 conserved gate region; other site 935296011754 putative PBP binding loops; other site 935296011755 ABC-ATPase subunit interface; other site 935296011756 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 935296011757 maltoporin; Provisional; Region: lamB; PRK09360 935296011758 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 935296011759 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 935296011760 active site 935296011761 P-loop; other site 935296011762 phosphorylation site [posttranslational modification] 935296011763 Transcriptional regulators [Transcription]; Region: PurR; COG1609 935296011764 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 935296011765 DNA binding site [nucleotide binding] 935296011766 domain linker motif; other site 935296011767 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 935296011768 ligand binding site [chemical binding]; other site 935296011769 dimerization interface [polypeptide binding]; other site 935296011770 Post-segregation antitoxin CcdA; Region: CcdA; cl02188 935296011771 EamA-like transporter family; Region: EamA; pfam00892 935296011772 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 935296011773 EamA-like transporter family; Region: EamA; pfam00892 935296011774 Cupin; Region: Cupin_6; pfam12852 935296011775 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 935296011776 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296011777 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296011778 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 935296011779 Uncharacterized conserved protein [Function unknown]; Region: COG2128 935296011780 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 935296011781 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 935296011782 basic leucine zipper DNA-binding and multimerization region of GCN4 and related proteins; Region: B_zip1; cl02576 935296011783 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296011784 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296011785 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_2; cd08471 935296011786 putative effector binding pocket; other site 935296011787 putative dimerization interface [polypeptide binding]; other site 935296011788 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 935296011789 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935296011790 putative substrate translocation pore; other site 935296011791 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 935296011792 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935296011793 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296011794 Coenzyme A binding pocket [chemical binding]; other site 935296011795 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 935296011796 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 935296011797 HlyD family secretion protein; Region: HlyD_3; pfam13437 935296011798 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 935296011799 MMPL family; Region: MMPL; cl14618 935296011800 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 935296011801 Outer membrane efflux protein; Region: OEP; pfam02321 935296011802 Outer membrane efflux protein; Region: OEP; pfam02321 935296011803 N-acetylmuramic acid 6-phosphate etherase; Region: TIGR00274 935296011804 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 935296011805 putative active site [active] 935296011806 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 935296011807 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 935296011808 active site turn [active] 935296011809 phosphorylation site [posttranslational modification] 935296011810 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 935296011811 cytoplasmic membrane lipoprotein-28; Provisional; Region: PRK09861 935296011812 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 935296011813 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 935296011814 dimer interface [polypeptide binding]; other site 935296011815 ADP-ribose binding site [chemical binding]; other site 935296011816 active site 935296011817 nudix motif; other site 935296011818 metal binding site [ion binding]; metal-binding site 935296011819 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 935296011820 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 935296011821 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 935296011822 conserved cys residue [active] 935296011823 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296011824 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296011825 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 935296011826 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 935296011827 putative NAD(P) binding site [chemical binding]; other site 935296011828 putative substrate binding site [chemical binding]; other site 935296011829 catalytic Zn binding site [ion binding]; other site 935296011830 structural Zn binding site [ion binding]; other site 935296011831 dimer interface [polypeptide binding]; other site 935296011832 Uncharacterized conserved protein [Function unknown]; Region: COG1359 935296011833 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 935296011834 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 935296011835 putative NAD(P) binding site [chemical binding]; other site 935296011836 dimer interface [polypeptide binding]; other site 935296011837 DNA binding domain, excisionase family; Region: excise; TIGR01764 935296011838 PIN domain; Region: PIN_3; pfam13470 935296011839 Phosphate-selective porin O and P; Region: Porin_O_P; cl19535 935296011840 Virulence protein [General function prediction only]; Region: COG3943 935296011841 putative transporter; Provisional; Region: PRK11462 935296011842 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 935296011843 putative alpha-glucosidase; Provisional; Region: PRK10658 935296011844 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 935296011845 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 935296011846 active site 935296011847 homotrimer interface [polypeptide binding]; other site 935296011848 catalytic site [active] 935296011849 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 935296011850 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 935296011851 HTH domain; Region: HTH_11; pfam08279 935296011852 Mga helix-turn-helix domain; Region: Mga; pfam05043 935296011853 PRD domain; Region: PRD; pfam00874 935296011854 PRD domain; Region: PRD; pfam00874 935296011855 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 935296011856 active site 935296011857 P-loop; other site 935296011858 phosphorylation site [posttranslational modification] 935296011859 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 935296011860 active site 935296011861 phosphorylation site [posttranslational modification] 935296011862 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 935296011863 active site 935296011864 P-loop; other site 935296011865 phosphorylation site [posttranslational modification] 935296011866 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 935296011867 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 935296011868 intersubunit interface [polypeptide binding]; other site 935296011869 active site 935296011870 zinc binding site [ion binding]; other site 935296011871 Na+ binding site [ion binding]; other site 935296011872 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 935296011873 intersubunit interface [polypeptide binding]; other site 935296011874 active site 935296011875 zinc binding site [ion binding]; other site 935296011876 Na+ binding site [ion binding]; other site 935296011877 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 935296011878 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 935296011879 nucleotide binding site [chemical binding]; other site 935296011880 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 935296011881 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 935296011882 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 935296011883 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 935296011884 putative active site [active] 935296011885 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 935296011886 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 935296011887 NAD(P) binding site [chemical binding]; other site 935296011888 LDH/MDH dimer interface [polypeptide binding]; other site 935296011889 substrate binding site [chemical binding]; other site 935296011890 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 935296011891 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 935296011892 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 935296011893 active site turn [active] 935296011894 phosphorylation site [posttranslational modification] 935296011895 AsmA family; Region: AsmA; pfam05170 935296011896 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 935296011897 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 935296011898 Sulfate transporter family; Region: Sulfate_transp; cl19250 935296011899 Sodium/glutamate symporter; Region: Glt_symporter; cl19414 935296011900 glycerol kinase; Provisional; Region: glpK; PRK00047 935296011901 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 935296011902 N- and C-terminal domain interface [polypeptide binding]; other site 935296011903 active site 935296011904 MgATP binding site [chemical binding]; other site 935296011905 catalytic site [active] 935296011906 metal binding site [ion binding]; metal-binding site 935296011907 glycerol binding site [chemical binding]; other site 935296011908 homotetramer interface [polypeptide binding]; other site 935296011909 homodimer interface [polypeptide binding]; other site 935296011910 FBP binding site [chemical binding]; other site 935296011911 protein IIAGlc interface [polypeptide binding]; other site 935296011912 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 935296011913 amphipathic channel; other site 935296011914 Asn-Pro-Ala signature motifs; other site 935296011915 septal ring assembly protein ZapB; Provisional; Region: PRK15422 935296011916 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 935296011917 substrate binding pocket [chemical binding]; other site 935296011918 membrane-bound complex binding site; other site 935296011919 CDP-diacylglycerol pyrophosphatase; Provisional; Region: PRK05471 935296011920 anion transporter; Region: dass; TIGR00785 935296011921 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 935296011922 transmembrane helices; other site 935296011923 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 935296011924 substrate binding site [chemical binding]; other site 935296011925 dimer interface [polypeptide binding]; other site 935296011926 catalytic triad [active] 935296011927 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 935296011928 Predicted membrane protein [Function unknown]; Region: COG3152 935296011929 ferredoxin-NADP reductase; Provisional; Region: PRK10926 935296011930 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 935296011931 FAD binding pocket [chemical binding]; other site 935296011932 FAD binding motif [chemical binding]; other site 935296011933 phosphate binding motif [ion binding]; other site 935296011934 beta-alpha-beta structure motif; other site 935296011935 NAD binding pocket [chemical binding]; other site 935296011936 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 935296011937 putative active site [active] 935296011938 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 935296011939 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 935296011940 generic binding surface II; other site 935296011941 ssDNA binding site; other site 935296011942 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 935296011943 ATP binding site [chemical binding]; other site 935296011944 putative Mg++ binding site [ion binding]; other site 935296011945 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 935296011946 nucleotide binding region [chemical binding]; other site 935296011947 ATP-binding site [chemical binding]; other site 935296011948 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 935296011949 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 935296011950 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 935296011951 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 935296011952 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 935296011953 Zn2+ binding site [ion binding]; other site 935296011954 Mg2+ binding site [ion binding]; other site 935296011955 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 935296011956 synthetase active site [active] 935296011957 NTP binding site [chemical binding]; other site 935296011958 metal binding site [ion binding]; metal-binding site 935296011959 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 935296011960 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 935296011961 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 935296011962 Guanylate kinase; Region: Guanylate_kin; pfam00625 935296011963 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 935296011964 catalytic site [active] 935296011965 G-X2-G-X-G-K; other site 935296011966 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 935296011967 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 935296011968 nucleotide binding pocket [chemical binding]; other site 935296011969 K-X-D-G motif; other site 935296011970 catalytic site [active] 935296011971 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 935296011972 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 935296011973 Sulfatase; Region: Sulfatase; cl19157 935296011974 Predicted membrane protein [Function unknown]; Region: COG2860 935296011975 UPF0126 domain; Region: UPF0126; pfam03458 935296011976 UPF0126 domain; Region: UPF0126; pfam03458 935296011977 hypothetical protein; Provisional; Region: PRK11820 935296011978 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 935296011979 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 935296011980 ribonuclease PH; Reviewed; Region: rph; PRK00173 935296011981 Ribonuclease PH; Region: RNase_PH_bact; cd11362 935296011982 hexamer interface [polypeptide binding]; other site 935296011983 active site 935296011984 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935296011985 active site 935296011986 division inhibitor protein; Provisional; Region: slmA; PRK09480 935296011987 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935296011988 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 935296011989 trimer interface [polypeptide binding]; other site 935296011990 active site 935296011991 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 935296011992 Flavoprotein; Region: Flavoprotein; cl19190 935296011993 DNA / pantothenate metabolizm flavoprotein; Region: DFP; pfam04127 935296011994 hypothetical protein; Reviewed; Region: PRK00024 935296011995 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 935296011996 MPN+ (JAMM) motif; other site 935296011997 Zinc-binding site [ion binding]; other site 935296011998 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 935296011999 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 935296012000 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 935296012001 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 935296012002 DNA binding site [nucleotide binding] 935296012003 catalytic residue [active] 935296012004 H2TH interface [polypeptide binding]; other site 935296012005 putative catalytic residues [active] 935296012006 turnover-facilitating residue; other site 935296012007 intercalation triad [nucleotide binding]; other site 935296012008 8OG recognition residue [nucleotide binding]; other site 935296012009 putative reading head residues; other site 935296012010 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 935296012011 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 935296012012 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 935296012013 active site 935296012014 (T/H)XGH motif; other site 935296012015 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 935296012016 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 935296012017 putative metal binding site; other site 935296012018 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 935296012019 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 935296012020 Glycosyl transferases group 1; Region: Glycos_transf_1; pfam00534 935296012021 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 935296012022 Sulfatase; Region: Sulfatase; cl19157 935296012023 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 935296012024 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 935296012025 putative glycosyl transferase; Provisional; Region: PRK10073 935296012026 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 935296012027 active site 935296012028 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 935296012029 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 935296012030 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 935296012031 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 935296012032 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 935296012033 putative active site [active] 935296012034 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 935296012035 putative active site [active] 935296012036 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 935296012037 putative active site [active] 935296012038 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 935296012039 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 935296012040 NADP binding site [chemical binding]; other site 935296012041 homopentamer interface [polypeptide binding]; other site 935296012042 substrate binding site [chemical binding]; other site 935296012043 active site 935296012044 8-amino-7-oxononanoate synthase; Region: bioF; TIGR00858 935296012045 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 935296012046 substrate-cofactor binding pocket; other site 935296012047 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296012048 catalytic residue [active] 935296012049 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 935296012050 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 935296012051 NAD(P) binding site [chemical binding]; other site 935296012052 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 935296012053 putative metal binding site; other site 935296012054 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 935296012055 NodB motif; other site 935296012056 putative active site [active] 935296012057 putative catalytic site [active] 935296012058 Zn binding site [ion binding]; other site 935296012059 AmiB activator; Provisional; Region: PRK11637 935296012060 Vps51/Vps67; Region: Vps51; pfam08700 935296012061 Peptidase family M23; Region: Peptidase_M23; pfam01551 935296012062 phosphoglyceromutase; Provisional; Region: PRK05434 935296012063 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 935296012064 active site residue [active] 935296012065 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 935296012066 GSH binding site [chemical binding]; other site 935296012067 catalytic residues [active] 935296012068 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 935296012069 SecA binding site; other site 935296012070 Preprotein binding site; other site 935296012071 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 935296012072 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 935296012073 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 935296012074 serine acetyltransferase; Provisional; Region: cysE; PRK11132 935296012075 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 935296012076 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 935296012077 trimer interface [polypeptide binding]; other site 935296012078 active site 935296012079 substrate binding site [chemical binding]; other site 935296012080 CoA binding site [chemical binding]; other site 935296012081 putative rRNA methylase; Provisional; Region: PRK10358 935296012082 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 935296012083 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 935296012084 active site 935296012085 substrate binding site [chemical binding]; other site 935296012086 FMN binding site [chemical binding]; other site 935296012087 putative catalytic residues [active] 935296012088 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 935296012089 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935296012090 DNA-binding site [nucleotide binding]; DNA binding site 935296012091 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 935296012092 L-lactate permease; Provisional; Region: PRK10420 935296012093 hypothetical protein; Provisional; Region: PRK11020 935296012094 Glycogen synthesis protein; Region: GlgS; cl11663 935296012095 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 935296012096 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 935296012097 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 935296012098 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 935296012099 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 935296012100 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 935296012101 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 935296012102 active site 935296012103 P-loop; other site 935296012104 phosphorylation site [posttranslational modification] 935296012105 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 935296012106 active site 935296012107 phosphorylation site [posttranslational modification] 935296012108 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 935296012109 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 935296012110 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 935296012111 HlyD family secretion protein; Region: HlyD_3; pfam13437 935296012112 putative glutathione S-transferase; Provisional; Region: PRK10357 935296012113 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 935296012114 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 935296012115 N-terminal domain interface [polypeptide binding]; other site 935296012116 dimer interface [polypeptide binding]; other site 935296012117 substrate binding pocket (H-site) [chemical binding]; other site 935296012118 selenocysteine synthase; Provisional; Region: PRK04311 935296012119 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 935296012120 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 935296012121 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 935296012122 catalytic residue [active] 935296012123 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 935296012124 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 935296012125 G1 box; other site 935296012126 putative GEF interaction site [polypeptide binding]; other site 935296012127 GTP/Mg2+ binding site [chemical binding]; other site 935296012128 Switch I region; other site 935296012129 G2 box; other site 935296012130 G3 box; other site 935296012131 Switch II region; other site 935296012132 G4 box; other site 935296012133 G5 box; other site 935296012134 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 935296012135 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 935296012136 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 935296012137 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 935296012138 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 935296012139 dimer interface [polypeptide binding]; other site 935296012140 active site 935296012141 metal binding site [ion binding]; metal-binding site 935296012142 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 935296012143 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; cl19102 935296012144 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 935296012145 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 935296012146 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296012147 homodimer interface [polypeptide binding]; other site 935296012148 catalytic residue [active] 935296012149 alpha-amylase; Reviewed; Region: malS; PRK09505 935296012150 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 935296012151 active site 935296012152 catalytic site [active] 935296012153 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 935296012154 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 935296012155 putative dimerization interface [polypeptide binding]; other site 935296012156 Transcriptional regulators [Transcription]; Region: PurR; COG1609 935296012157 putative ligand binding site [chemical binding]; other site 935296012158 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296012159 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 935296012160 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296012161 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 935296012162 TM-ABC transporter signature motif; other site 935296012163 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 935296012164 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 935296012165 Walker A/P-loop; other site 935296012166 ATP binding site [chemical binding]; other site 935296012167 Q-loop/lid; other site 935296012168 ABC transporter signature motif; other site 935296012169 Walker B; other site 935296012170 D-loop; other site 935296012171 H-loop/switch region; other site 935296012172 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 935296012173 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 935296012174 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 935296012175 putative ligand binding site [chemical binding]; other site 935296012176 xylose isomerase; Provisional; Region: PRK05474 935296012177 xylulokinase; Provisional; Region: PRK15027 935296012178 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 935296012179 N- and C-terminal domain interface [polypeptide binding]; other site 935296012180 active site 935296012181 MgATP binding site [chemical binding]; other site 935296012182 catalytic site [active] 935296012183 metal binding site [ion binding]; metal-binding site 935296012184 xylulose binding site [chemical binding]; other site 935296012185 homodimer interface [polypeptide binding]; other site 935296012186 hypothetical protein; Provisional; Region: PRK11403 935296012187 yiaA/B two helix domain; Region: YiaAB; cl01759 935296012188 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 935296012189 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 935296012190 YsaB-like lipoprotein; Region: YsaB; pfam13983 935296012191 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 935296012192 dimer interface [polypeptide binding]; other site 935296012193 motif 1; other site 935296012194 active site 935296012195 motif 2; other site 935296012196 motif 3; other site 935296012197 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 935296012198 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 935296012199 DALR anticodon binding domain; Region: DALR_1; pfam05746 935296012200 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 935296012201 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935296012202 ABC transporter; Region: ABC_tran_2; pfam12848 935296012203 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935296012204 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 935296012205 DNA-binding site [nucleotide binding]; DNA binding site 935296012206 RNA-binding motif; other site 935296012207 Predicted transcriptional regulator [Transcription]; Region: COG2944 935296012208 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 935296012209 salt bridge; other site 935296012210 non-specific DNA binding site [nucleotide binding]; other site 935296012211 sequence-specific DNA binding site [nucleotide binding]; other site 935296012212 benzoate transport; Region: 2A0115; TIGR00895 935296012213 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 935296012214 putative substrate translocation pore; other site 935296012215 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 935296012216 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 935296012217 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 935296012218 dimerization interface [polypeptide binding]; other site 935296012219 ligand binding site [chemical binding]; other site 935296012220 NADP binding site [chemical binding]; other site 935296012221 catalytic site [active] 935296012222 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 935296012223 D-galactonate transporter; Region: 2A0114; TIGR00893 935296012224 putative substrate translocation pore; other site 935296012225 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 935296012226 substrate binding site [chemical binding]; other site 935296012227 ATP binding site [chemical binding]; other site 935296012228 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 935296012229 Transcriptional regulators [Transcription]; Region: PurR; COG1609 935296012230 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 935296012231 DNA binding site [nucleotide binding] 935296012232 domain linker motif; other site 935296012233 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 935296012234 putative dimerization interface [polypeptide binding]; other site 935296012235 putative ligand binding site [chemical binding]; other site 935296012236 putative outer membrane lipoprotein; Provisional; Region: PRK10510 935296012237 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 935296012238 ligand binding site [chemical binding]; other site 935296012239 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 935296012240 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 935296012241 molybdopterin cofactor binding site [chemical binding]; other site 935296012242 substrate binding site [chemical binding]; other site 935296012243 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 935296012244 molybdopterin cofactor binding site; other site 935296012245 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 935296012246 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296012247 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 935296012248 Coenzyme A binding pocket [chemical binding]; other site 935296012249 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 935296012250 Autotransporter beta-domain; Region: Autotransporter; cl17461 935296012251 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 935296012252 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 935296012253 putative substrate translocation pore; other site 935296012254 phosphoethanolamine transferase; Provisional; Region: PRK11560 935296012255 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 935296012256 Sulfatase; Region: Sulfatase; pfam00884 935296012257 antimicrobial peptide ABC transporter periplasmic binding protein SapA; Provisional; Region: PRK15109 935296012258 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 935296012259 peptide binding site [polypeptide binding]; other site 935296012260 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 935296012261 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 935296012262 dimer interface [polypeptide binding]; other site 935296012263 conserved gate region; other site 935296012264 putative PBP binding loops; other site 935296012265 ABC-ATPase subunit interface; other site 935296012266 dipeptide transporter; Provisional; Region: PRK10913 935296012267 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 935296012268 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 935296012269 dimer interface [polypeptide binding]; other site 935296012270 conserved gate region; other site 935296012271 putative PBP binding loops; other site 935296012272 ABC-ATPase subunit interface; other site 935296012273 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 935296012274 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935296012275 Walker A/P-loop; other site 935296012276 ATP binding site [chemical binding]; other site 935296012277 Q-loop/lid; other site 935296012278 ABC transporter signature motif; other site 935296012279 Walker B; other site 935296012280 D-loop; other site 935296012281 H-loop/switch region; other site 935296012282 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 935296012283 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 935296012284 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935296012285 Walker A/P-loop; other site 935296012286 ATP binding site [chemical binding]; other site 935296012287 Q-loop/lid; other site 935296012288 ABC transporter signature motif; other site 935296012289 Walker B; other site 935296012290 D-loop; other site 935296012291 H-loop/switch region; other site 935296012292 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 935296012293 Protein of unknown function (DUF3260); Region: DUF3260; pfam11658 935296012294 Protein of unknown function (DUF2636); Region: DUF2636; pfam11120 935296012295 Protein of unknown function (DUF2819); Region: DUF2819; cl17862 935296012296 Protein of unknown function (DUF2629); Region: DUF2629; pfam10945 935296012297 YhjQ protein; Region: YhjQ; pfam06564 935296012298 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 935296012299 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 935296012300 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 935296012301 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 935296012302 DXD motif; other site 935296012303 PilZ domain; Region: PilZ; pfam07238 935296012304 cellulose synthase regulator protein; Provisional; Region: PRK11114 935296012305 endo-1,4-D-glucanase; Provisional; Region: PRK11097 935296012306 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 935296012307 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 935296012308 binding surface 935296012309 TPR motif; other site 935296012310 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 935296012311 TPR motif; other site 935296012312 binding surface 935296012313 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 935296012314 putative diguanylate cyclase; Provisional; Region: PRK13561 935296012315 HAMP domain; Region: HAMP; pfam00672 935296012316 diguanylate cyclase; Region: GGDEF; smart00267 935296012317 metal binding site [ion binding]; metal-binding site 935296012318 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 935296012319 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 935296012320 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 935296012321 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 935296012322 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 935296012323 substrate binding site [chemical binding]; other site 935296012324 ATP binding site [chemical binding]; other site 935296012325 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 935296012326 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 935296012327 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 935296012328 metabolite-proton symporter; Region: 2A0106; TIGR00883 935296012329 putative substrate translocation pore; other site 935296012330 inner membrane protein YhjD; Region: TIGR00766 935296012331 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296012332 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296012333 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 935296012334 putative effector binding pocket; other site 935296012335 putative dimerization interface [polypeptide binding]; other site 935296012336 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 935296012337 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935296012338 NAD(P) binding site [chemical binding]; other site 935296012339 active site 935296012340 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 935296012341 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 935296012342 DNA binding residues [nucleotide binding] 935296012343 dimerization interface [polypeptide binding]; other site 935296012344 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 935296012345 catalytic residue [active] 935296012346 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 935296012347 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 935296012348 trehalase; Provisional; Region: treF; PRK13270 935296012349 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 935296012350 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH2; cd08183 935296012351 putative active site [active] 935296012352 metal binding site [ion binding]; metal-binding site 935296012353 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 935296012354 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 935296012355 putative C-terminal domain interface [polypeptide binding]; other site 935296012356 putative GSH binding site (G-site) [chemical binding]; other site 935296012357 putative dimer interface [polypeptide binding]; other site 935296012358 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 935296012359 N-terminal domain interface [polypeptide binding]; other site 935296012360 dimer interface [polypeptide binding]; other site 935296012361 substrate binding pocket (H-site) [chemical binding]; other site 935296012362 Transcriptional regulators [Transcription]; Region: PurR; COG1609 935296012363 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 935296012364 DNA binding site [nucleotide binding] 935296012365 domain linker motif; other site 935296012366 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 935296012367 putative dimerization interface [polypeptide binding]; other site 935296012368 putative ligand binding site [chemical binding]; other site 935296012369 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 935296012370 histidinol dehydrogenase; Region: hisD; TIGR00069 935296012371 NAD binding site [chemical binding]; other site 935296012372 dimerization interface [polypeptide binding]; other site 935296012373 product binding site; other site 935296012374 substrate binding site [chemical binding]; other site 935296012375 zinc binding site [ion binding]; other site 935296012376 catalytic residues [active] 935296012377 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 935296012378 Beta-lactamase; Region: Beta-lactamase; pfam00144 935296012379 glutathione reductase; Validated; Region: PRK06116 935296012380 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 935296012381 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935296012382 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 935296012383 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 935296012384 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 935296012385 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 935296012386 active site 935296012387 Zn binding site [ion binding]; other site 935296012388 putative methyltransferase; Provisional; Region: PRK10742 935296012389 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 935296012390 S-adenosylmethionine binding site [chemical binding]; other site 935296012391 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 935296012392 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 935296012393 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935296012394 Predicted transcriptional regulator [Transcription]; Region: COG1959 935296012395 Rrf2 family protein; Region: rrf2_super; TIGR00738 935296012396 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 935296012397 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 935296012398 putative substrate translocation pore; other site 935296012399 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 935296012400 Ligand Binding Site [chemical binding]; other site 935296012401 Universal stress protein B (UspB); Region: UspB; cl11669 935296012402 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 935296012403 Predicted flavoproteins [General function prediction only]; Region: COG2081 935296012404 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 935296012405 FOG: CBS domain [General function prediction only]; Region: COG0517 935296012406 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 935296012407 Divalent cation transporter; Region: MgtE; pfam01769 935296012408 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 935296012409 nickel transporter ATP-binding protein NikE; Provisional; Region: nikE; PRK10419 935296012410 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935296012411 Walker A/P-loop; other site 935296012412 ATP binding site [chemical binding]; other site 935296012413 Q-loop/lid; other site 935296012414 ABC transporter signature motif; other site 935296012415 Walker B; other site 935296012416 D-loop; other site 935296012417 H-loop/switch region; other site 935296012418 nickel transporter ATP-binding protein NikD; Provisional; Region: nikD; PRK10418 935296012419 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935296012420 Walker A/P-loop; other site 935296012421 ATP binding site [chemical binding]; other site 935296012422 Q-loop/lid; other site 935296012423 ABC transporter signature motif; other site 935296012424 Walker B; other site 935296012425 D-loop; other site 935296012426 H-loop/switch region; other site 935296012427 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 935296012428 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 935296012429 dimer interface [polypeptide binding]; other site 935296012430 conserved gate region; other site 935296012431 putative PBP binding loops; other site 935296012432 ABC-ATPase subunit interface; other site 935296012433 nickel transporter permease NikB; Provisional; Region: PRK10352 935296012434 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 935296012435 dimer interface [polypeptide binding]; other site 935296012436 conserved gate region; other site 935296012437 putative PBP binding loops; other site 935296012438 ABC-ATPase subunit interface; other site 935296012439 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 935296012440 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 935296012441 substrate binding site [chemical binding]; other site 935296012442 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296012443 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296012444 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 935296012445 dimerization interface [polypeptide binding]; other site 935296012446 Phenolic Acid Decarboxylase; Region: PAD; cd14241 935296012447 active site 935296012448 dimer interface [polypeptide binding]; other site 935296012449 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 935296012450 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 935296012451 inhibitor-cofactor binding pocket; inhibition site 935296012452 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296012453 catalytic residue [active] 935296012454 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 935296012455 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 935296012456 Ligand binding site; other site 935296012457 Putative Catalytic site; other site 935296012458 DXD motif; other site 935296012459 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 935296012460 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 935296012461 active site 935296012462 substrate binding site [chemical binding]; other site 935296012463 cosubstrate binding site; other site 935296012464 catalytic site [active] 935296012465 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 935296012466 active site 935296012467 hexamer interface [polypeptide binding]; other site 935296012468 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 935296012469 NAD binding site [chemical binding]; other site 935296012470 substrate binding site [chemical binding]; other site 935296012471 active site 935296012472 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 935296012473 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 935296012474 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 935296012475 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 935296012476 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 935296012477 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 935296012478 holo-(acyl carrier protein) synthase 2; Provisional; Region: PRK10351 935296012479 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 935296012480 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 935296012481 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 935296012482 dimer interface [polypeptide binding]; other site 935296012483 active site 935296012484 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935296012485 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 935296012486 NAD(P) binding site [chemical binding]; other site 935296012487 active site 935296012488 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 935296012489 active site 2 [active] 935296012490 active site 1 [active] 935296012491 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 935296012492 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 935296012493 dimer interface [polypeptide binding]; other site 935296012494 active site 935296012495 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 935296012496 Predicted exporter [General function prediction only]; Region: COG4258 935296012497 MMPL family; Region: MMPL; cl14618 935296012498 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl19192 935296012499 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 935296012500 active site 935296012501 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 935296012502 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 935296012503 Ligand binding site; other site 935296012504 Putative Catalytic site; other site 935296012505 DXD motif; other site 935296012506 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 935296012507 putative acyl-acceptor binding pocket; other site 935296012508 3-hydroxymyristoyl/3-hydroxydecanoyl-(acyl carrier protein) dehydratases [Lipid metabolism]; Region: FabA; COG0764 935296012509 active site 2 [active] 935296012510 active site 1 [active] 935296012511 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 935296012512 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 935296012513 acyl-activating enzyme (AAE) consensus motif; other site 935296012514 active site 935296012515 AMP binding site [chemical binding]; other site 935296012516 CoA binding site [chemical binding]; other site 935296012517 Predicted membrane protein [Function unknown]; Region: COG4648 935296012518 acyl carrier protein; Provisional; Region: PRK05350 935296012519 Phosphopantetheine attachment site; Region: PP-binding; cl09936 935296012520 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 935296012521 putative acyl-acceptor binding pocket; other site 935296012522 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 935296012523 major facilitator superfamily transporter; Provisional; Region: PRK05122 935296012524 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 935296012525 putative substrate translocation pore; other site 935296012526 hypothetical protein; Provisional; Region: PRK11615 935296012527 hypothetical protein; Provisional; Region: PRK11212 935296012528 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 935296012529 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 935296012530 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 935296012531 metal-binding site [ion binding] 935296012532 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 935296012533 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 935296012534 active site 935296012535 motif I; other site 935296012536 motif II; other site 935296012537 Predicted membrane protein [Function unknown]; Region: COG3714 935296012538 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 935296012539 hypothetical protein; Provisional; Region: PRK10910 935296012540 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 935296012541 S-adenosylmethionine binding site [chemical binding]; other site 935296012542 Mitochondria Localisation Sequence; Region: AIF-MLS; pfam14962 935296012543 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 935296012544 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 935296012545 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 935296012546 P loop; other site 935296012547 GTP binding site [chemical binding]; other site 935296012548 cell division protein FtsE; Provisional; Region: PRK10908 935296012549 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296012550 Walker A/P-loop; other site 935296012551 ATP binding site [chemical binding]; other site 935296012552 Q-loop/lid; other site 935296012553 ABC transporter signature motif; other site 935296012554 Walker B; other site 935296012555 D-loop; other site 935296012556 H-loop/switch region; other site 935296012557 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 935296012558 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 935296012559 alternative sigma factor RpoH; Region: rpoH_proteo; TIGR02392 935296012560 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 935296012561 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 935296012562 DNA binding residues [nucleotide binding] 935296012563 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 935296012564 dimerization interface [polypeptide binding]; other site 935296012565 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 935296012566 ligand binding site [chemical binding]; other site 935296012567 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 935296012568 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296012569 Coenzyme A binding pocket [chemical binding]; other site 935296012570 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 935296012571 dimerization interface [polypeptide binding]; other site 935296012572 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 935296012573 ligand binding site [chemical binding]; other site 935296012574 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 935296012575 TM-ABC transporter signature motif; other site 935296012576 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 935296012577 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 935296012578 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 935296012579 TM-ABC transporter signature motif; other site 935296012580 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 935296012581 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 935296012582 Walker A/P-loop; other site 935296012583 ATP binding site [chemical binding]; other site 935296012584 Q-loop/lid; other site 935296012585 ABC transporter signature motif; other site 935296012586 Walker B; other site 935296012587 D-loop; other site 935296012588 H-loop/switch region; other site 935296012589 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 935296012590 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 935296012591 Walker A/P-loop; other site 935296012592 ATP binding site [chemical binding]; other site 935296012593 Q-loop/lid; other site 935296012594 ABC transporter signature motif; other site 935296012595 Walker B; other site 935296012596 D-loop; other site 935296012597 H-loop/switch region; other site 935296012598 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 935296012599 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 935296012600 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 935296012601 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 935296012602 dimer interface [polypeptide binding]; other site 935296012603 conserved gate region; other site 935296012604 putative PBP binding loops; other site 935296012605 ABC-ATPase subunit interface; other site 935296012606 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 935296012607 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 935296012608 dimer interface [polypeptide binding]; other site 935296012609 conserved gate region; other site 935296012610 putative PBP binding loops; other site 935296012611 ABC-ATPase subunit interface; other site 935296012612 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 935296012613 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 935296012614 Walker A/P-loop; other site 935296012615 ATP binding site [chemical binding]; other site 935296012616 Q-loop/lid; other site 935296012617 ABC transporter signature motif; other site 935296012618 Walker B; other site 935296012619 D-loop; other site 935296012620 H-loop/switch region; other site 935296012621 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 935296012622 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 935296012623 putative active site [active] 935296012624 catalytic site [active] 935296012625 putative metal binding site [ion binding]; other site 935296012626 Protein of unknown function (DUF2756); Region: DUF2756; pfam10956 935296012627 gamma-glutamyltranspeptidase; Reviewed; Region: ggt; PRK09615 935296012628 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 935296012629 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296012630 Coenzyme A binding pocket [chemical binding]; other site 935296012631 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 935296012632 putative oxidoreductase; Provisional; Region: PRK10206 935296012633 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 935296012634 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 935296012635 Pirin-related protein [General function prediction only]; Region: COG1741 935296012636 Pirin; Region: Pirin; pfam02678 935296012637 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 935296012638 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 935296012639 DNA binding site [nucleotide binding] 935296012640 domain linker motif; other site 935296012641 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 935296012642 putative ligand binding site [chemical binding]; other site 935296012643 putative dimerization interface [polypeptide binding]; other site 935296012644 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 935296012645 ATP-binding site [chemical binding]; other site 935296012646 Gluconate-6-phosphate binding site [chemical binding]; other site 935296012647 low affinity gluconate transporter; Provisional; Region: PRK10472 935296012648 GntP family permease; Region: GntP_permease; pfam02447 935296012649 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 935296012650 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 935296012651 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 935296012652 glycogen branching enzyme; Provisional; Region: PRK05402 935296012653 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 935296012654 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 935296012655 active site 935296012656 catalytic site [active] 935296012657 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 935296012658 glycogen debranching enzyme; Provisional; Region: PRK03705 935296012659 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 935296012660 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 935296012661 active site 935296012662 catalytic site [active] 935296012663 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 935296012664 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 935296012665 ligand binding site; other site 935296012666 oligomer interface; other site 935296012667 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 935296012668 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 935296012669 dimer interface [polypeptide binding]; other site 935296012670 N-terminal domain interface [polypeptide binding]; other site 935296012671 sulfate 1 binding site; other site 935296012672 glycogen synthase; Provisional; Region: glgA; PRK00654 935296012673 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 935296012674 ADP-binding pocket [chemical binding]; other site 935296012675 homodimer interface [polypeptide binding]; other site 935296012676 glycogen phosphorylase; Provisional; Region: PRK14986 935296012677 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 935296012678 homodimer interface [polypeptide binding]; other site 935296012679 active site pocket [active] 935296012680 FAD dependent oxidoreductase; Region: DAO; pfam01266 935296012681 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 935296012682 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 935296012683 active site residue [active] 935296012684 intramembrane serine protease GlpG; Provisional; Region: PRK10907 935296012685 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 935296012686 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 935296012687 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 935296012688 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 935296012689 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 935296012690 transcriptional regulator MalT; Provisional; Region: PRK04841 935296012691 AAA ATPase domain; Region: AAA_16; pfam13191 935296012692 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 935296012693 DNA binding residues [nucleotide binding] 935296012694 dimerization interface [polypeptide binding]; other site 935296012695 maltodextrin phosphorylase; Provisional; Region: PRK14985 935296012696 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 935296012697 homodimer interface [polypeptide binding]; other site 935296012698 active site pocket [active] 935296012699 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 935296012700 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 935296012701 high-affinity gluconate transporter; Provisional; Region: PRK14984 935296012702 GntP family permease; Region: GntP_permease; pfam02447 935296012703 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 935296012704 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 935296012705 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 935296012706 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 935296012707 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935296012708 active site 935296012709 carboxylesterase BioH; Provisional; Region: PRK10349 935296012710 Putative lysophospholipase; Region: Hydrolase_4; cl19140 935296012711 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 935296012712 ferrous iron transport protein FeoC; Provisional; Region: PRK15431 935296012713 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 935296012714 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 935296012715 G1 box; other site 935296012716 GTP/Mg2+ binding site [chemical binding]; other site 935296012717 Switch I region; other site 935296012718 G2 box; other site 935296012719 G3 box; other site 935296012720 Switch II region; other site 935296012721 G4 box; other site 935296012722 G5 box; other site 935296012723 Nucleoside recognition; Region: Gate; pfam07670 935296012724 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 935296012725 Nucleoside recognition; Region: Gate; pfam07670 935296012726 ferrous iron transport protein A; Reviewed; Region: feoA; PRK09555 935296012727 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 935296012728 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 935296012729 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 935296012730 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 935296012731 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 935296012732 RNA binding site [nucleotide binding]; other site 935296012733 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 935296012734 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 935296012735 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 935296012736 Transcriptional regulators [Transcription]; Region: FadR; COG2186 935296012737 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935296012738 DNA-binding site [nucleotide binding]; DNA binding site 935296012739 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 935296012740 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 935296012741 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935296012742 NAD(P) binding site [chemical binding]; other site 935296012743 active site 935296012744 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 935296012745 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 935296012746 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 935296012747 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 935296012748 putative active site pocket [active] 935296012749 metal binding site [ion binding]; metal-binding site 935296012750 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 935296012751 active site 935296012752 short chain dehydrogenase; Provisional; Region: PRK08628 935296012753 classical (c) SDRs; Region: SDR_c; cd05233 935296012754 NAD(P) binding site [chemical binding]; other site 935296012755 active site 935296012756 Domain of unknown function (DUF718); Region: DUF718; pfam05336 935296012757 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 935296012758 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 935296012759 putative substrate translocation pore; other site 935296012760 osmolarity response regulator; Provisional; Region: ompR; PRK09468 935296012761 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 935296012762 active site 935296012763 phosphorylation site [posttranslational modification] 935296012764 intermolecular recognition site; other site 935296012765 dimerization interface [polypeptide binding]; other site 935296012766 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 935296012767 DNA binding site [nucleotide binding] 935296012768 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 935296012769 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 935296012770 dimerization interface [polypeptide binding]; other site 935296012771 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 935296012772 dimer interface [polypeptide binding]; other site 935296012773 phosphorylation site [posttranslational modification] 935296012774 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 935296012775 ATP binding site [chemical binding]; other site 935296012776 Mg2+ binding site [ion binding]; other site 935296012777 G-X-G motif; other site 935296012778 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 935296012779 active site 935296012780 substrate-binding site [chemical binding]; other site 935296012781 metal-binding site [ion binding] 935296012782 ATP binding site [chemical binding]; other site 935296012783 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 935296012784 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 935296012785 dimerization interface [polypeptide binding]; other site 935296012786 domain crossover interface; other site 935296012787 redox-dependent activation switch; other site 935296012788 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 935296012789 RNA binding surface [nucleotide binding]; other site 935296012790 GMP/IMP nucleotidase; Provisional; Region: PRK14988 935296012791 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 935296012792 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 935296012793 motif II; other site 935296012794 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 935296012795 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 935296012796 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 935296012797 ADP-ribose binding site [chemical binding]; other site 935296012798 dimer interface [polypeptide binding]; other site 935296012799 active site 935296012800 nudix motif; other site 935296012801 metal binding site [ion binding]; metal-binding site 935296012802 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 935296012803 Transglycosylase; Region: Transgly; pfam00912 935296012804 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 935296012805 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 935296012806 Fimbrial assembly protein (PilN); Region: PilN; cl19830 935296012807 outer membrane porin HofQ; Provisional; Region: hofQ; PRK10560 935296012808 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 935296012809 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 935296012810 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 935296012811 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 935296012812 ADP binding site [chemical binding]; other site 935296012813 magnesium binding site [ion binding]; other site 935296012814 putative shikimate binding site; other site 935296012815 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 935296012816 active site 935296012817 dimer interface [polypeptide binding]; other site 935296012818 metal binding site [ion binding]; metal-binding site 935296012819 cell division protein DamX; Validated; Region: PRK10905 935296012820 Sporulation related domain; Region: SPOR; pfam05036 935296012821 DNA adenine methylase; Provisional; Region: PRK10904 935296012822 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 935296012823 substrate binding site [chemical binding]; other site 935296012824 hexamer interface [polypeptide binding]; other site 935296012825 metal binding site [ion binding]; metal-binding site 935296012826 phosphoglycolate phosphatase; Provisional; Region: PRK13222 935296012827 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 935296012828 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 935296012829 motif II; other site 935296012830 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK00927 935296012831 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 935296012832 active site 935296012833 HIGH motif; other site 935296012834 dimer interface [polypeptide binding]; other site 935296012835 KMSKS motif; other site 935296012836 siroheme synthase; Provisional; Region: cysG; PRK10637 935296012837 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 935296012838 Sirohaem biosynthesis protein central; Region: Sirohm_synth_M; pfam14824 935296012839 Sirohaem synthase dimerization region; Region: CysG_dimeriser; pfam10414 935296012840 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 935296012841 active site 935296012842 SAM binding site [chemical binding]; other site 935296012843 homodimer interface [polypeptide binding]; other site 935296012844 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 935296012845 nitrite reductase subunit NirD; Provisional; Region: PRK14989 935296012846 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 935296012847 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 935296012848 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 935296012849 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 935296012850 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 935296012851 active site 935296012852 putative transporter; Provisional; Region: PRK03699 935296012853 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 935296012854 putative substrate translocation pore; other site 935296012855 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 935296012856 substrate binding site [chemical binding]; other site 935296012857 hypothetical protein; Provisional; Region: PRK10204 935296012858 cell filamentation protein Fic; Provisional; Region: PRK10347 935296012859 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 935296012860 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 935296012861 glutamine binding [chemical binding]; other site 935296012862 catalytic triad [active] 935296012863 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 935296012864 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 935296012865 inhibitor-cofactor binding pocket; inhibition site 935296012866 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296012867 catalytic residue [active] 935296012868 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 935296012869 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 935296012870 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 935296012871 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 935296012872 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 935296012873 ligand binding site [chemical binding]; other site 935296012874 flexible hinge region; other site 935296012875 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 935296012876 putative switch regulator; other site 935296012877 non-specific DNA interactions [nucleotide binding]; other site 935296012878 DNA binding site [nucleotide binding] 935296012879 sequence specific DNA binding site [nucleotide binding]; other site 935296012880 putative cAMP binding site [chemical binding]; other site 935296012881 hypothetical protein; Provisional; Region: PRK10738 935296012882 phosphoribulokinase; Provisional; Region: PRK15453 935296012883 active site 935296012884 hypothetical protein; Provisional; Region: PRK04966 935296012885 putative hydrolase; Provisional; Region: PRK10985 935296012886 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 935296012887 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 935296012888 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935296012889 ABC transporter; Region: ABC_tran_2; pfam12848 935296012890 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 935296012891 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 935296012892 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional; Region: PRK04930 935296012893 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 935296012894 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 935296012895 TrkA-N domain; Region: TrkA_N; pfam02254 935296012896 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 935296012897 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 935296012898 phi X174 lysis protein; Provisional; Region: PRK02793 935296012899 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 935296012900 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 935296012901 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 935296012902 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 935296012903 YheO-like PAS domain; Region: PAS_6; pfam08348 935296012904 HTH domain; Region: HTH_22; pfam13309 935296012905 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 935296012906 sulfur relay protein TusC; Validated; Region: PRK00211 935296012907 sulfur transfer complex subunit TusB; Provisional; Region: PRK13510 935296012908 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 935296012909 S17 interaction site [polypeptide binding]; other site 935296012910 S8 interaction site; other site 935296012911 16S rRNA interaction site [nucleotide binding]; other site 935296012912 streptomycin interaction site [chemical binding]; other site 935296012913 23S rRNA interaction site [nucleotide binding]; other site 935296012914 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 935296012915 30S ribosomal protein S7; Validated; Region: PRK05302 935296012916 elongation factor G; Reviewed; Region: PRK00007 935296012917 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 935296012918 G1 box; other site 935296012919 putative GEF interaction site [polypeptide binding]; other site 935296012920 GTP/Mg2+ binding site [chemical binding]; other site 935296012921 Switch I region; other site 935296012922 G2 box; other site 935296012923 G3 box; other site 935296012924 Switch II region; other site 935296012925 G4 box; other site 935296012926 G5 box; other site 935296012927 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 935296012928 Elongation Factor G, domain II; Region: EFG_II; pfam14492 935296012929 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 935296012930 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 935296012931 elongation factor Tu; Reviewed; Region: PRK00049 935296012932 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 935296012933 G1 box; other site 935296012934 GEF interaction site [polypeptide binding]; other site 935296012935 GTP/Mg2+ binding site [chemical binding]; other site 935296012936 Switch I region; other site 935296012937 G2 box; other site 935296012938 G3 box; other site 935296012939 Switch II region; other site 935296012940 G4 box; other site 935296012941 G5 box; other site 935296012942 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 935296012943 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 935296012944 Antibiotic Binding Site [chemical binding]; other site 935296012945 bacterioferritin-associated ferredoxin; Provisional; Region: PRK10509 935296012946 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 935296012947 Ferritin-like domain; Region: Ferritin; pfam00210 935296012948 heme binding site [chemical binding]; other site 935296012949 ferroxidase pore; other site 935296012950 ferroxidase diiron center [ion binding]; other site 935296012951 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 935296012952 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 935296012953 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 935296012954 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 935296012955 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 935296012956 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 935296012957 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 935296012958 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 935296012959 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 935296012960 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 935296012961 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 935296012962 protein-rRNA interface [nucleotide binding]; other site 935296012963 putative translocon binding site; other site 935296012964 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 935296012965 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 935296012966 G-X-X-G motif; other site 935296012967 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 935296012968 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 935296012969 23S rRNA interface [nucleotide binding]; other site 935296012970 5S rRNA interface [nucleotide binding]; other site 935296012971 putative antibiotic binding site [chemical binding]; other site 935296012972 L25 interface [polypeptide binding]; other site 935296012973 L27 interface [polypeptide binding]; other site 935296012974 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 935296012975 23S rRNA interface [nucleotide binding]; other site 935296012976 putative translocon interaction site; other site 935296012977 signal recognition particle (SRP54) interaction site; other site 935296012978 L23 interface [polypeptide binding]; other site 935296012979 trigger factor interaction site; other site 935296012980 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 935296012981 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 935296012982 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 935296012983 RNA binding site [nucleotide binding]; other site 935296012984 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 935296012985 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 935296012986 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 935296012987 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 935296012988 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 935296012989 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 935296012990 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 935296012991 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 935296012992 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 935296012993 23S rRNA interface [nucleotide binding]; other site 935296012994 5S rRNA interface [nucleotide binding]; other site 935296012995 L27 interface [polypeptide binding]; other site 935296012996 L5 interface [polypeptide binding]; other site 935296012997 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 935296012998 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 935296012999 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 935296013000 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 935296013001 23S rRNA binding site [nucleotide binding]; other site 935296013002 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 935296013003 SecY translocase; Region: SecY; pfam00344 935296013004 SecY translocase; Region: SecY; pfam00344 935296013005 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 935296013006 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 935296013007 30S ribosomal protein S11; Validated; Region: PRK05309 935296013008 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 935296013009 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 935296013010 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 935296013011 RNA binding surface [nucleotide binding]; other site 935296013012 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 935296013013 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 935296013014 alphaNTD homodimer interface [polypeptide binding]; other site 935296013015 alphaNTD - beta interaction site [polypeptide binding]; other site 935296013016 alphaNTD - beta' interaction site [polypeptide binding]; other site 935296013017 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 935296013018 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 935296013019 hypothetical protein; Provisional; Region: PRK10203 935296013020 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 935296013021 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 935296013022 DNA binding residues [nucleotide binding] 935296013023 dimer interface [polypeptide binding]; other site 935296013024 metal binding site [ion binding]; metal-binding site 935296013025 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 935296013026 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 935296013027 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 935296013028 TrkA-N domain; Region: TrkA_N; pfam02254 935296013029 TrkA-C domain; Region: TrkA_C; pfam02080 935296013030 TrkA-N domain; Region: TrkA_N; pfam02254 935296013031 TrkA-C domain; Region: TrkA_C; pfam02080 935296013032 16S rRNA methyltransferase B; Provisional; Region: PRK10901 935296013033 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 935296013034 putative RNA binding site [nucleotide binding]; other site 935296013035 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 935296013036 S-adenosylmethionine binding site [chemical binding]; other site 935296013037 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 935296013038 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 935296013039 putative active site [active] 935296013040 substrate binding site [chemical binding]; other site 935296013041 putative cosubstrate binding site; other site 935296013042 catalytic site [active] 935296013043 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 935296013044 substrate binding site [chemical binding]; other site 935296013045 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 935296013046 active site 935296013047 catalytic residues [active] 935296013048 metal binding site [ion binding]; metal-binding site 935296013049 hypothetical protein; Provisional; Region: PRK10736 935296013050 DNA protecting protein DprA; Region: dprA; TIGR00732 935296013051 hypothetical protein; Validated; Region: PRK03430 935296013052 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 935296013053 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 935296013054 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 935296013055 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 935296013056 tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; Provisional; Region: PRK10634 935296013057 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 935296013058 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 935296013059 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 935296013060 shikimate binding site; other site 935296013061 NAD(P) binding site [chemical binding]; other site 935296013062 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 935296013063 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 935296013064 trimer interface [polypeptide binding]; other site 935296013065 putative metal binding site [ion binding]; other site 935296013066 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 935296013067 MMPL family; Region: MMPL; cl14618 935296013068 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 935296013069 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 935296013070 HlyD family secretion protein; Region: HlyD_3; pfam13437 935296013071 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 935296013072 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 935296013073 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 935296013074 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 935296013075 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 935296013076 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 935296013077 FMN binding site [chemical binding]; other site 935296013078 active site 935296013079 catalytic residues [active] 935296013080 substrate binding site [chemical binding]; other site 935296013081 ribosomal protein L11 methyltransferase; Region: prmA; TIGR00406 935296013082 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 935296013083 S-adenosylmethionine binding site [chemical binding]; other site 935296013084 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 935296013085 Na binding site [ion binding]; other site 935296013086 Protein of unknown function (DUF997); Region: DUF997; cl01614 935296013087 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 935296013088 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 935296013089 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 935296013090 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 935296013091 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 935296013092 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 935296013093 carboxyltransferase (CT) interaction site; other site 935296013094 biotinylation site [posttranslational modification]; other site 935296013095 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 935296013096 trimer interface [polypeptide binding]; other site 935296013097 active site 935296013098 dimer interface [polypeptide binding]; other site 935296013099 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 935296013100 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 935296013101 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 935296013102 Moco binding site; other site 935296013103 metal coordination site [ion binding]; other site 935296013104 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 935296013105 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 935296013106 NADP binding site [chemical binding]; other site 935296013107 dimer interface [polypeptide binding]; other site 935296013108 regulatory protein CsrD; Provisional; Region: PRK11059 935296013109 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 935296013110 metal binding site [ion binding]; metal-binding site 935296013111 active site 935296013112 I-site; other site 935296013113 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 935296013114 rod shape-determining protein MreB; Provisional; Region: PRK13927 935296013115 MreB and similar proteins; Region: MreB_like; cd10225 935296013116 nucleotide binding site [chemical binding]; other site 935296013117 Mg binding site [ion binding]; other site 935296013118 putative protofilament interaction site [polypeptide binding]; other site 935296013119 RodZ interaction site [polypeptide binding]; other site 935296013120 rod shape-determining protein MreC; Region: mreC; TIGR00219 935296013121 rod shape-determining protein MreD; Provisional; Region: PRK11060 935296013122 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 935296013123 active site 935296013124 dimer interface [polypeptide binding]; other site 935296013125 ribonuclease G; Provisional; Region: PRK11712 935296013126 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 935296013127 homodimer interface [polypeptide binding]; other site 935296013128 oligonucleotide binding site [chemical binding]; other site 935296013129 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 935296013130 hypothetical protein; Provisional; Region: PRK10899 935296013131 Protein of unknown function; Region: DUF3971; pfam13116 935296013132 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 935296013133 protease TldD; Provisional; Region: tldD; PRK10735 935296013134 transcriptional regulator; Provisional; Region: PRK10632 935296013135 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296013136 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 935296013137 putative effector binding pocket; other site 935296013138 dimerization interface [polypeptide binding]; other site 935296013139 efflux system membrane protein; Provisional; Region: PRK11594 935296013140 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 935296013141 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 935296013142 HlyD family secretion protein; Region: HlyD_3; pfam13437 935296013143 p-hydroxybenzoic acid efflux subunit AaeB; Provisional; Region: PRK10631 935296013144 Fusaric acid resistance protein family; Region: FUSC; pfam04632 935296013145 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...; Region: Barstar_like; cl01048 935296013146 RNAase interaction site [polypeptide binding]; other site 935296013147 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 935296013148 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 935296013149 arginine repressor; Provisional; Region: PRK05066 935296013150 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 935296013151 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 935296013152 malate dehydrogenase; Provisional; Region: PRK05086 935296013153 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 935296013154 NAD binding site [chemical binding]; other site 935296013155 dimerization interface [polypeptide binding]; other site 935296013156 Substrate binding site [chemical binding]; other site 935296013157 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 935296013158 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 935296013159 serine endoprotease; Provisional; Region: PRK10898 935296013160 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 935296013161 PDZ domain of trypsin-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 935296013162 protein binding site [polypeptide binding]; other site 935296013163 serine endoprotease; Provisional; Region: PRK10139 935296013164 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 935296013165 PDZ domain of trypsin-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 935296013166 protein binding site [polypeptide binding]; other site 935296013167 PDZ domain of trypsin-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 935296013168 hypothetical protein; Provisional; Region: PRK11677 935296013169 Predicted ATPase [General function prediction only]; Region: COG1485 935296013170 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 935296013171 23S rRNA interface [nucleotide binding]; other site 935296013172 L3 interface [polypeptide binding]; other site 935296013173 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 935296013174 stringent starvation protein A; Provisional; Region: sspA; PRK09481 935296013175 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 935296013176 C-terminal domain interface [polypeptide binding]; other site 935296013177 putative GSH binding site (G-site) [chemical binding]; other site 935296013178 dimer interface [polypeptide binding]; other site 935296013179 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 935296013180 dimer interface [polypeptide binding]; other site 935296013181 N-terminal domain interface [polypeptide binding]; other site 935296013182 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 935296013183 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 935296013184 Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; Region: Fer4_20; pfam14691 935296013185 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 935296013186 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935296013187 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 935296013188 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 935296013189 active site 935296013190 dimer interface [polypeptide binding]; other site 935296013191 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 935296013192 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 935296013193 active site 935296013194 FMN binding site [chemical binding]; other site 935296013195 substrate binding site [chemical binding]; other site 935296013196 3Fe-4S cluster binding site [ion binding]; other site 935296013197 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 935296013198 domain interface; other site 935296013199 radical SAM protein, TIGR01212 family; Region: TIGR01212 935296013200 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 935296013201 FeS/SAM binding site; other site 935296013202 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 935296013203 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 935296013204 putative active site [active] 935296013205 heme pocket [chemical binding]; other site 935296013206 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 935296013207 dimer interface [polypeptide binding]; other site 935296013208 phosphorylation site [posttranslational modification] 935296013209 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 935296013210 ATP binding site [chemical binding]; other site 935296013211 Mg2+ binding site [ion binding]; other site 935296013212 G-X-G motif; other site 935296013213 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 935296013214 active site 935296013215 phosphorylation site [posttranslational modification] 935296013216 intermolecular recognition site; other site 935296013217 dimerization interface [polypeptide binding]; other site 935296013218 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 935296013219 putative binding surface; other site 935296013220 active site 935296013221 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 935296013222 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 935296013223 conserved cys residue [active] 935296013224 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 935296013225 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 935296013226 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 935296013227 dimerization domain swap beta strand [polypeptide binding]; other site 935296013228 regulatory protein interface [polypeptide binding]; other site 935296013229 active site 935296013230 regulatory phosphorylation site [posttranslational modification]; other site 935296013231 P-loop ATPase protein family; Region: ATP_bind_2; pfam03668 935296013232 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 935296013233 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 935296013234 active site 935296013235 phosphorylation site [posttranslational modification] 935296013236 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 935296013237 30S subunit binding site; other site 935296013238 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 935296013239 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 935296013240 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 935296013241 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 935296013242 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 935296013243 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 935296013244 Walker A/P-loop; other site 935296013245 ATP binding site [chemical binding]; other site 935296013246 Q-loop/lid; other site 935296013247 ABC transporter signature motif; other site 935296013248 Walker B; other site 935296013249 D-loop; other site 935296013250 H-loop/switch region; other site 935296013251 lipopolysaccharide transport periplasmic protein LptA; Provisional; Region: PRK10894 935296013252 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 935296013253 lipopolysaccharide exporter periplasmic protein; Provisional; Region: PRK10893 935296013254 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 935296013255 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 935296013256 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 935296013257 putative active site [active] 935296013258 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 935296013259 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 935296013260 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 935296013261 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 935296013262 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 935296013263 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 935296013264 Walker A/P-loop; other site 935296013265 ATP binding site [chemical binding]; other site 935296013266 Q-loop/lid; other site 935296013267 ABC transporter signature motif; other site 935296013268 Walker B; other site 935296013269 D-loop; other site 935296013270 H-loop/switch region; other site 935296013271 conserved hypothetical integral membrane protein; Region: TIGR00056 935296013272 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 935296013273 mce related protein; Region: MCE; pfam02470 935296013274 ABC transporter periplasmic binding protein MlaC; Provisional; Region: PRK15117 935296013275 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 935296013276 anti sigma factor interaction site; other site 935296013277 regulatory phosphorylation site [posttranslational modification]; other site 935296013278 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 935296013279 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase); Region: EPSP_synthase; pfam00275 935296013280 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 935296013281 hinge; other site 935296013282 active site 935296013283 DNA-binding transcriptional regulator Nlp; Provisional; Region: PRK10344 935296013284 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 935296013285 substrate binding pocket [chemical binding]; other site 935296013286 chain length determination region; other site 935296013287 substrate-Mg2+ binding site; other site 935296013288 catalytic residues [active] 935296013289 aspartate-rich region 1; other site 935296013290 active site lid residues [active] 935296013291 aspartate-rich region 2; other site 935296013292 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 935296013293 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 935296013294 EamA-like transporter family; Region: EamA; pfam00892 935296013295 EamA-like transporter family; Region: EamA; pfam00892 935296013296 GTPase CgtA; Reviewed; Region: obgE; PRK12298 935296013297 GTP1/OBG; Region: GTP1_OBG; pfam01018 935296013298 Obg GTPase; Region: Obg; cd01898 935296013299 G1 box; other site 935296013300 GTP/Mg2+ binding site [chemical binding]; other site 935296013301 Switch I region; other site 935296013302 G2 box; other site 935296013303 G3 box; other site 935296013304 Switch II region; other site 935296013305 G4 box; other site 935296013306 G5 box; other site 935296013307 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 935296013308 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 935296013309 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 935296013310 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 935296013311 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 935296013312 RNA-binding protein YhbY; Provisional; Region: PRK10343 935296013313 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 935296013314 S-adenosylmethionine binding site [chemical binding]; other site 935296013315 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 935296013316 FtsH Extracellular; Region: FtsH_ext; pfam06480 935296013317 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 935296013318 Walker A motif; other site 935296013319 ATP binding site [chemical binding]; other site 935296013320 Walker B motif; other site 935296013321 arginine finger; other site 935296013322 Peptidase family M41; Region: Peptidase_M41; pfam01434 935296013323 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 935296013324 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 935296013325 substrate binding pocket [chemical binding]; other site 935296013326 dimer interface [polypeptide binding]; other site 935296013327 inhibitor binding site; inhibition site 935296013328 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 935296013329 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 935296013330 active site 935296013331 substrate binding site [chemical binding]; other site 935296013332 metal binding site [ion binding]; metal-binding site 935296013333 Preprotein translocase SecG subunit; Region: SecG; pfam03840 935296013334 YfaZ precursor; Region: YfaZ; pfam07437 935296013335 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 935296013336 argininosuccinate synthase; Validated; Region: PRK05370 935296013337 hypothetical protein; Provisional; Region: PRK14641 935296013338 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 935296013339 putative oligomer interface [polypeptide binding]; other site 935296013340 putative RNA binding site [nucleotide binding]; other site 935296013341 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 935296013342 NusA N-terminal domain; Region: NusA_N; pfam08529 935296013343 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 935296013344 RNA binding site [nucleotide binding]; other site 935296013345 homodimer interface [polypeptide binding]; other site 935296013346 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 935296013347 G-X-X-G motif; other site 935296013348 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 935296013349 G-X-X-G motif; other site 935296013350 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 935296013351 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 935296013352 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 935296013353 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 935296013354 translation initiation factor IF-2; Validated; Region: infB; PRK05306 935296013355 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 935296013356 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 935296013357 G1 box; other site 935296013358 putative GEF interaction site [polypeptide binding]; other site 935296013359 GTP/Mg2+ binding site [chemical binding]; other site 935296013360 Switch I region; other site 935296013361 G2 box; other site 935296013362 G3 box; other site 935296013363 Switch II region; other site 935296013364 G4 box; other site 935296013365 G5 box; other site 935296013366 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 935296013367 Translation-initiation factor 2; Region: IF-2; pfam11987 935296013368 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 935296013369 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 935296013370 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 935296013371 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 935296013372 RNA binding site [nucleotide binding]; other site 935296013373 active site 935296013374 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 935296013375 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 935296013376 16S/18S rRNA binding site [nucleotide binding]; other site 935296013377 S13e-L30e interaction site [polypeptide binding]; other site 935296013378 25S rRNA binding site [nucleotide binding]; other site 935296013379 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 935296013380 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 935296013381 RNase E interface [polypeptide binding]; other site 935296013382 trimer interface [polypeptide binding]; other site 935296013383 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 935296013384 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 935296013385 RNase E interface [polypeptide binding]; other site 935296013386 trimer interface [polypeptide binding]; other site 935296013387 active site 935296013388 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 935296013389 putative nucleic acid binding region [nucleotide binding]; other site 935296013390 G-X-X-G motif; other site 935296013391 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 935296013392 RNA binding site [nucleotide binding]; other site 935296013393 domain interface; other site 935296013394 lipoprotein NlpI; Provisional; Region: PRK11189 935296013395 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 935296013396 binding surface 935296013397 TPR motif; other site 935296013398 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 935296013399 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 935296013400 ATP binding site [chemical binding]; other site 935296013401 Mg++ binding site [ion binding]; other site 935296013402 motif III; other site 935296013403 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 935296013404 nucleotide binding region [chemical binding]; other site 935296013405 ATP-binding site [chemical binding]; other site 935296013406 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 935296013407 putative RNA binding site [nucleotide binding]; other site 935296013408 tryptophan permease; Provisional; Region: PRK10483 935296013409 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 935296013410 hypothetical protein; Provisional; Region: PRK10508 935296013411 putative protease; Provisional; Region: PRK15447 935296013412 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 935296013413 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 935296013414 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 935296013415 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296013416 Coenzyme A binding pocket [chemical binding]; other site 935296013417 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 935296013418 GIY-YIG motif/motif A; other site 935296013419 putative active site [active] 935296013420 putative metal binding site [ion binding]; other site 935296013421 hypothetical protein; Provisional; Region: PRK03467 935296013422 intracellular protease, PfpI family; Region: PfpI; TIGR01382 935296013423 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 935296013424 proposed catalytic triad [active] 935296013425 conserved cys residue [active] 935296013426 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 935296013427 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935296013428 NAD(P) binding site [chemical binding]; other site 935296013429 active site 935296013430 Predicted permease; Region: DUF318; pfam03773 935296013431 outer membrane lipoprotein; Provisional; Region: PRK11023 935296013432 BON domain; Region: BON; pfam04972 935296013433 BON domain; Region: BON; pfam04972 935296013434 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 935296013435 dimer interface [polypeptide binding]; other site 935296013436 active site 935296013437 hypothetical protein; Reviewed; Region: PRK12497 935296013438 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 935296013439 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 935296013440 putative ligand binding site [chemical binding]; other site 935296013441 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 935296013442 putative SAM binding site [chemical binding]; other site 935296013443 putative homodimer interface [polypeptide binding]; other site 935296013444 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 935296013445 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 935296013446 active site 935296013447 intersubunit interface [polypeptide binding]; other site 935296013448 zinc binding site [ion binding]; other site 935296013449 Na+ binding site [ion binding]; other site 935296013450 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 935296013451 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 935296013452 dimer interface [polypeptide binding]; other site 935296013453 active site 935296013454 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 935296013455 putative active site [active] 935296013456 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 935296013457 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 935296013458 active site 935296013459 dimer interface [polypeptide binding]; other site 935296013460 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 935296013461 active pocket/dimerization site; other site 935296013462 active site 935296013463 phosphorylation site [posttranslational modification] 935296013464 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 935296013465 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 935296013466 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 935296013467 active site 935296013468 phosphorylation site [posttranslational modification] 935296013469 tagatose 6-phosphate aldolase subunit KbaZ; Provisional; Region: PRK15458 935296013470 DNA-binding transcriptional regulator AgaR; Provisional; Region: PRK09802 935296013471 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 935296013472 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 935296013473 galactarate dehydratase; Region: galactar-dH20; TIGR03248 935296013474 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 935296013475 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 935296013476 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional; Region: PRK10558 935296013477 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 935296013478 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 935296013479 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 935296013480 Glycerate kinase family; Region: Gly_kinase; cl00841 935296013481 mechanosensitive channel MscS; Provisional; Region: PRK10334 935296013482 Conserved TM helix; Region: TM_helix; pfam05552 935296013483 Mechanosensitive ion channel; Region: MS_channel; pfam00924 935296013484 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 935296013485 dimer interface [polypeptide binding]; other site 935296013486 Pirin-related protein [General function prediction only]; Region: COG1741 935296013487 Pirin; Region: Pirin; pfam02678 935296013488 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296013489 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 935296013490 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 935296013491 dimerization interface [polypeptide binding]; other site 935296013492 Predicted membrane protein [Function unknown]; Region: COG3152 935296013493 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 935296013494 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 935296013495 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 935296013496 putative dimer interface [polypeptide binding]; other site 935296013497 N-terminal domain interface [polypeptide binding]; other site 935296013498 putative substrate binding pocket (H-site) [chemical binding]; other site 935296013499 Predicted membrane protein [Function unknown]; Region: COG2259 935296013500 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 935296013501 YqjK-like protein; Region: YqjK; pfam13997 935296013502 Predicted membrane protein [Function unknown]; Region: COG5393 935296013503 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 935296013504 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 935296013505 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 935296013506 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 935296013507 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 935296013508 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935296013509 DNA-binding site [nucleotide binding]; DNA binding site 935296013510 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 935296013511 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 935296013512 D-galactonate transporter; Region: 2A0114; TIGR00893 935296013513 putative substrate translocation pore; other site 935296013514 glucuronate isomerase; Reviewed; Region: PRK02925 935296013515 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 935296013516 galactarate dehydratase; Region: galactar-dH20; TIGR03248 935296013517 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 935296013518 serine/threonine transporter SstT; Provisional; Region: PRK13628 935296013519 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 935296013520 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 935296013521 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 935296013522 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 935296013523 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 935296013524 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 935296013525 S-adenosylmethionine binding site [chemical binding]; other site 935296013526 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 935296013527 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 935296013528 active site 935296013529 FMN binding site [chemical binding]; other site 935296013530 2,4-decadienoyl-CoA binding site; other site 935296013531 catalytic residue [active] 935296013532 4Fe-4S cluster binding site [ion binding]; other site 935296013533 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 935296013534 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 935296013535 Autoinducer-2 kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K; cd07775 935296013536 putative N- and C-terminal domain interface [polypeptide binding]; other site 935296013537 putative active site [active] 935296013538 putative MgATP binding site [chemical binding]; other site 935296013539 catalytic site [active] 935296013540 metal binding site [ion binding]; metal-binding site 935296013541 putative carbohydrate binding site [chemical binding]; other site 935296013542 transcriptional regulator LsrR; Provisional; Region: PRK15418 935296013543 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 935296013544 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional; Region: PRK15439 935296013545 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 935296013546 Walker A/P-loop; other site 935296013547 ATP binding site [chemical binding]; other site 935296013548 Q-loop/lid; other site 935296013549 ABC transporter signature motif; other site 935296013550 Walker B; other site 935296013551 D-loop; other site 935296013552 H-loop/switch region; other site 935296013553 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 935296013554 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 935296013555 TM-ABC transporter signature motif; other site 935296013556 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 935296013557 TM-ABC transporter signature motif; other site 935296013558 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 935296013559 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 935296013560 ligand binding site [chemical binding]; other site 935296013561 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 935296013562 putative active site; other site 935296013563 catalytic residue [active] 935296013564 autoinducer-2 (AI-2) modifying protein LsrG; Provisional; Region: PRK10486 935296013565 alpha-glucosidase; Provisional; Region: PRK10137 935296013566 inner membrane transporter YjeM; Provisional; Region: PRK15238 935296013567 inner membrane transporter YjeM; Provisional; Region: PRK15238 935296013568 Domain of unknown function (DUF386); Region: DUF386; cl01047 935296013569 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 935296013570 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 935296013571 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 935296013572 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 935296013573 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 935296013574 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 935296013575 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 935296013576 DNA binding site [nucleotide binding] 935296013577 domain linker motif; other site 935296013578 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 935296013579 putative dimerization interface [polypeptide binding]; other site 935296013580 putative ligand binding site [chemical binding]; other site 935296013581 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 935296013582 dimer interface [polypeptide binding]; other site 935296013583 putative tRNA-binding site [nucleotide binding]; other site 935296013584 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 935296013585 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 935296013586 inhibitor-cofactor binding pocket; inhibition site 935296013587 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296013588 catalytic residue [active] 935296013589 Predicted transcriptional regulators [Transcription]; Region: COG1695 935296013590 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 935296013591 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 935296013592 FAD binding pocket [chemical binding]; other site 935296013593 FAD binding motif [chemical binding]; other site 935296013594 phosphate binding motif [ion binding]; other site 935296013595 NAD binding pocket [chemical binding]; other site 935296013596 dihydroxyacetone kinase, ATP-dependent; Region: dak_ATP; TIGR02361 935296013597 Dak1 domain; Region: Dak1; cl10557 935296013598 DAK2 domain; Region: Dak2; pfam02734 935296013599 dihydroxyacetone kinase subunit M; Provisional; Region: PRK11377 935296013600 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3412 935296013601 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 935296013602 dimerization domain swap beta strand [polypeptide binding]; other site 935296013603 regulatory protein interface [polypeptide binding]; other site 935296013604 active site 935296013605 regulatory phosphorylation site [posttranslational modification]; other site 935296013606 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 935296013607 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 935296013608 dihydroxyacetone kinase subunit DhaL; Provisional; Region: PRK10005 935296013609 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK11468 935296013610 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 935296013611 dimer interface [polypeptide binding]; other site 935296013612 active site 935296013613 metal binding site [ion binding]; metal-binding site 935296013614 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 935296013615 GAF domain; Region: GAF; pfam01590 935296013616 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 935296013617 Walker A motif; other site 935296013618 ATP binding site [chemical binding]; other site 935296013619 Walker B motif; other site 935296013620 arginine finger; other site 935296013621 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 935296013622 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 935296013623 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 935296013624 Sulfatase; Region: Sulfatase; pfam00884 935296013625 C-terminal region of aryl-sulfatase; Region: Sulfatase_C; pfam14707 935296013626 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 935296013627 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 935296013628 FeS/SAM binding site; other site 935296013629 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 935296013630 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 935296013631 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 935296013632 Oxygen tolerance; Region: BatD; pfam13584 935296013633 von Willebrand factor type A domain; Region: VWA_2; pfam13519 935296013634 metal ion-dependent adhesion site (MIDAS); other site 935296013635 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 935296013636 TPR motif; other site 935296013637 binding surface 935296013638 TPR repeat; Region: TPR_11; pfam13414 935296013639 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 935296013640 metal ion-dependent adhesion site (MIDAS); other site 935296013641 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 935296013642 Protein of unknown function DUF58; Region: DUF58; pfam01882 935296013643 MoxR-like ATPases [General function prediction only]; Region: COG0714 935296013644 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 935296013645 Walker A motif; other site 935296013646 ATP binding site [chemical binding]; other site 935296013647 Walker B motif; other site 935296013648 arginine finger; other site 935296013649 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 935296013650 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 935296013651 FeS/SAM binding site; other site 935296013652 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 935296013653 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 935296013654 Sulfatase; Region: Sulfatase; pfam00884 935296013655 C-terminal region of aryl-sulfatase; Region: Sulfatase_C; pfam14707 935296013656 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 935296013657 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 935296013658 Domain of unknown function (DUF1889); Region: DUF1889; pfam08986 935296013659 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 935296013660 active site 935296013661 SUMO-1 interface [polypeptide binding]; other site 935296013662 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 935296013663 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 935296013664 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 935296013665 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 935296013666 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 935296013667 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 935296013668 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 935296013669 DNA binding residues [nucleotide binding] 935296013670 DNA primase; Validated; Region: dnaG; PRK05667 935296013671 CHC2 zinc finger; Region: zf-CHC2; pfam01807 935296013672 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 935296013673 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 935296013674 active site 935296013675 metal binding site [ion binding]; metal-binding site 935296013676 interdomain interaction site; other site 935296013677 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 935296013678 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 935296013679 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 935296013680 UGMP family protein; Validated; Region: PRK09604 935296013681 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 935296013682 benzoate transport; Region: 2A0115; TIGR00895 935296013683 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 935296013684 putative substrate translocation pore; other site 935296013685 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 935296013686 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 935296013687 homooctamer interface [polypeptide binding]; other site 935296013688 active site 935296013689 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 935296013690 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 935296013691 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 935296013692 active site 935296013693 NTP binding site [chemical binding]; other site 935296013694 metal binding triad [ion binding]; metal-binding site 935296013695 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 935296013696 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 935296013697 Zn2+ binding site [ion binding]; other site 935296013698 Mg2+ binding site [ion binding]; other site 935296013699 SH3 domain-containing protein; Provisional; Region: PRK10884 935296013700 Bacterial SH3 domain homologues; Region: SH3b; smart00287 935296013701 Uncharacterized conserved protein [Function unknown]; Region: COG3025 935296013702 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 935296013703 putative active site [active] 935296013704 putative metal binding residues [ion binding]; other site 935296013705 signature motif; other site 935296013706 putative triphosphate binding site [ion binding]; other site 935296013707 CHAD domain; Region: CHAD; cl10506 935296013708 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 935296013709 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 935296013710 metal binding triad; other site 935296013711 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 935296013712 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 935296013713 metal binding triad; other site 935296013714 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; cl19627 935296013715 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 935296013716 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 935296013717 putative ribose interaction site [chemical binding]; other site 935296013718 putative ADP binding site [chemical binding]; other site 935296013719 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 935296013720 active site 935296013721 nucleotide binding site [chemical binding]; other site 935296013722 HIGH motif; other site 935296013723 KMSKS motif; other site 935296013724 glycogen synthesis protein GlgS; Provisional; Region: PRK02922 935296013725 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 935296013726 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 935296013727 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 935296013728 putative active site [active] 935296013729 metal binding site [ion binding]; metal-binding site 935296013730 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 935296013731 hypothetical protein; Provisional; Region: PRK11653 935296013732 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 935296013733 Outer membrane efflux protein; Region: OEP; pfam02321 935296013734 Outer membrane efflux protein; Region: OEP; pfam02321 935296013735 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 935296013736 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 935296013737 dimer interface [polypeptide binding]; other site 935296013738 ADP-ribose binding site [chemical binding]; other site 935296013739 active site 935296013740 nudix motif; other site 935296013741 metal binding site [ion binding]; metal-binding site 935296013742 putative dehydrogenase; Provisional; Region: PRK11039 935296013743 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 935296013744 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 935296013745 active site 935296013746 metal binding site [ion binding]; metal-binding site 935296013747 hexamer interface [polypeptide binding]; other site 935296013748 esterase YqiA; Provisional; Region: PRK11071 935296013749 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 935296013750 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 935296013751 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 935296013752 ATP binding site [chemical binding]; other site 935296013753 Mg2+ binding site [ion binding]; other site 935296013754 G-X-G motif; other site 935296013755 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 935296013756 anchoring element; other site 935296013757 dimer interface [polypeptide binding]; other site 935296013758 ATP binding site [chemical binding]; other site 935296013759 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 935296013760 active site 935296013761 metal binding site [ion binding]; metal-binding site 935296013762 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 935296013763 Uncharacterized conserved protein [Function unknown]; Region: COG1359 935296013764 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 935296013765 sensor protein QseC; Provisional; Region: PRK10337 935296013766 HAMP domain; Region: HAMP; pfam00672 935296013767 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 935296013768 dimer interface [polypeptide binding]; other site 935296013769 phosphorylation site [posttranslational modification] 935296013770 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 935296013771 ATP binding site [chemical binding]; other site 935296013772 Mg2+ binding site [ion binding]; other site 935296013773 G-X-G motif; other site 935296013774 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 935296013775 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 935296013776 active site 935296013777 phosphorylation site [posttranslational modification] 935296013778 intermolecular recognition site; other site 935296013779 dimerization interface [polypeptide binding]; other site 935296013780 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 935296013781 DNA binding site [nucleotide binding] 935296013782 Periplasmic protein with OB-fold [Function unknown]; Region: COG3111 935296013783 DNA topoisomerase IV, A subunit, proteobacterial; Region: parC_Gneg; TIGR01062 935296013784 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 935296013785 CAP-like domain; other site 935296013786 active site 935296013787 primary dimer interface [polypeptide binding]; other site 935296013788 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 935296013789 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 935296013790 putative acyl-acceptor binding pocket; other site 935296013791 FtsI repressor; Provisional; Region: PRK10883 935296013792 Cupredoxin superfamily; Region: Cupredoxin; cl19115 935296013793 The second Cupredoxin domain of the multicopper oxidase CueO, the cell division protein FtsP, and similar proteins; Region: CuRO_2_CueO_FtsP; cd13867 935296013794 Domain 1 interface [polypeptide binding]; other site 935296013795 Domain 3 interface [polypeptide binding]; other site 935296013796 The third Cupredoxin domain of the multicopper oxidase CueO, the cell division protein FtsP, and similar proteins; Region: CuRO_3_CueO_FtsP; cd13890 935296013797 Domain 2 interface [polypeptide binding]; other site 935296013798 Domain 1 interface [polypeptide binding]; other site 935296013799 Type 1 (T1) Cu binding site [ion binding]; other site 935296013800 trinuclear Cu binding site [ion binding]; other site 935296013801 hypothetical protein; Provisional; Region: PRK01254 935296013802 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 935296013803 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 935296013804 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 935296013805 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296013806 Coenzyme A binding pocket [chemical binding]; other site 935296013807 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 935296013808 active site 935296013809 catalytic tetrad [active] 935296013810 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 935296013811 dimer interface [polypeptide binding]; other site 935296013812 active site 935296013813 metal binding site [ion binding]; metal-binding site 935296013814 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 935296013815 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 935296013816 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296013817 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296013818 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 935296013819 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 935296013820 homodimer interface [polypeptide binding]; other site 935296013821 substrate-cofactor binding pocket; other site 935296013822 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296013823 catalytic residue [active] 935296013824 biopolymer transport protein ExbB; Provisional; Region: PRK10414 935296013825 biopolymer transport protein ExbD; Provisional; Region: PRK11267 935296013826 hypothetical protein; Provisional; Region: PRK05208 935296013827 putative S-transferase; Provisional; Region: PRK11752 935296013828 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 935296013829 C-terminal domain interface [polypeptide binding]; other site 935296013830 GSH binding site (G-site) [chemical binding]; other site 935296013831 dimer interface [polypeptide binding]; other site 935296013832 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 935296013833 dimer interface [polypeptide binding]; other site 935296013834 N-terminal domain interface [polypeptide binding]; other site 935296013835 active site 935296013836 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 935296013837 Thioredoxin; Region: Thioredoxin_4; cl17273 935296013838 bifunctional glutathionylspermidine amidase/glutathionylspermidine synthetase; Provisional; Region: PRK10507 935296013839 CHAP domain; Region: CHAP; pfam05257 935296013840 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 935296013841 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 935296013842 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 935296013843 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296013844 homodimer interface [polypeptide binding]; other site 935296013845 catalytic residue [active] 935296013846 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 935296013847 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 935296013848 inhibitor-cofactor binding pocket; inhibition site 935296013849 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296013850 catalytic residue [active] 935296013851 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 935296013852 NAD(P) binding site [chemical binding]; other site 935296013853 catalytic residues [active] 935296013854 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296013855 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296013856 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 935296013857 putative substrate binding pocket [chemical binding]; other site 935296013858 dimerization interface [polypeptide binding]; other site 935296013859 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 935296013860 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 935296013861 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 935296013862 homotrimer interaction site [polypeptide binding]; other site 935296013863 putative active site [active] 935296013864 Uncharacterized conserved protein [Function unknown]; Region: COG3342 935296013865 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 935296013866 acetylornithine deacetylase; Provisional; Region: PRK07522 935296013867 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 935296013868 metal binding site [ion binding]; metal-binding site 935296013869 putative dimer interface [polypeptide binding]; other site 935296013870 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 935296013871 Na binding site [ion binding]; other site 935296013872 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 935296013873 short chain dehydrogenase; Region: adh_short; pfam00106 935296013874 putative NAD(P) binding site [chemical binding]; other site 935296013875 homodimer interface [polypeptide binding]; other site 935296013876 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296013877 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296013878 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_8; cd08477 935296013879 putative effector binding pocket; other site 935296013880 putative dimerization interface [polypeptide binding]; other site 935296013881 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 935296013882 BON domain; Region: BON; pfam04972 935296013883 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 935296013884 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 935296013885 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 935296013886 Na binding site [ion binding]; other site 935296013887 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 935296013888 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 935296013889 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296013890 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296013891 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; pfam10022 935296013892 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 935296013893 galactoside permease; Reviewed; Region: lacY; PRK09528 935296013894 putative substrate translocation pore; other site 935296013895 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 935296013896 DJ-1 family protein; Region: not_thiJ; TIGR01383 935296013897 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 935296013898 conserved cys residue [active] 935296013899 outer membrane receptor FepA; Provisional; Region: PRK13528 935296013900 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 935296013901 N-terminal plug; other site 935296013902 ligand-binding site [chemical binding]; other site 935296013903 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 935296013904 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 935296013905 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 935296013906 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819; cl19187 935296013907 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 935296013908 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 935296013909 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296013910 Walker A/P-loop; other site 935296013911 ATP binding site [chemical binding]; other site 935296013912 Q-loop/lid; other site 935296013913 ABC transporter signature motif; other site 935296013914 Walker B; other site 935296013915 D-loop; other site 935296013916 H-loop/switch region; other site 935296013917 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 935296013918 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 935296013919 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296013920 Walker A/P-loop; other site 935296013921 ATP binding site [chemical binding]; other site 935296013922 Q-loop/lid; other site 935296013923 ABC transporter signature motif; other site 935296013924 Walker B; other site 935296013925 D-loop; other site 935296013926 H-loop/switch region; other site 935296013927 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 935296013928 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 935296013929 homodimer interface [polypeptide binding]; other site 935296013930 active site 935296013931 TDP-binding site; other site 935296013932 acceptor substrate-binding pocket; other site 935296013933 transcriptional regulator NanR; Provisional; Region: PRK03837 935296013934 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935296013935 DNA-binding site [nucleotide binding]; DNA binding site 935296013936 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 935296013937 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 935296013938 inhibitor site; inhibition site 935296013939 active site 935296013940 dimer interface [polypeptide binding]; other site 935296013941 catalytic residue [active] 935296013942 putative sialic acid transporter; Provisional; Region: PRK03893 935296013943 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 935296013944 putative substrate translocation pore; other site 935296013945 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 935296013946 putative active site cavity [active] 935296013947 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 935296013948 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 935296013949 nucleotide binding site [chemical binding]; other site 935296013950 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 935296013951 Protein of unknown function (DUF796); Region: DUF796; pfam05638 935296013952 TcdA/TcdB pore forming domain; Region: TcdA_TcdB_pore; pfam12920 935296013953 Uncharacterized membrane protein, possible Na+ channel or pump [General function prediction only]; Region: COG1811 935296013954 ornithine decarboxylase; Provisional; Region: PRK13578 935296013955 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 935296013956 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 935296013957 homodimer interface [polypeptide binding]; other site 935296013958 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296013959 catalytic residue [active] 935296013960 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 935296013961 nucleoside transporter; Region: 2A0110; TIGR00889 935296013962 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 935296013963 murein transglycosylase C; Provisional; Region: mltC; PRK11671 935296013964 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 935296013965 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 935296013966 N-acetyl-D-glucosamine binding site [chemical binding]; other site 935296013967 catalytic residue [active] 935296013968 oxidative damage protection protein; Provisional; Region: PRK05408 935296013969 adenine DNA glycosylase; Provisional; Region: PRK10880 935296013970 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 935296013971 minor groove reading motif; other site 935296013972 helix-hairpin-helix signature motif; other site 935296013973 substrate binding pocket [chemical binding]; other site 935296013974 active site 935296013975 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 935296013976 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 935296013977 DNA binding and oxoG recognition site [nucleotide binding] 935296013978 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 935296013979 hypothetical protein; Provisional; Region: PRK11702 935296013980 hypothetical protein; Provisional; Region: PRK10626 935296013981 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 935296013982 TM-ABC transporter signature motif; other site 935296013983 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 935296013984 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 935296013985 Walker A/P-loop; other site 935296013986 ATP binding site [chemical binding]; other site 935296013987 Q-loop/lid; other site 935296013988 ABC transporter signature motif; other site 935296013989 Walker B; other site 935296013990 D-loop; other site 935296013991 H-loop/switch region; other site 935296013992 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 935296013993 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 935296013994 putative ligand binding site [chemical binding]; other site 935296013995 HemN family oxidoreductase; Provisional; Region: PRK05660 935296013996 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 935296013997 FeS/SAM binding site; other site 935296013998 HemN C-terminal domain; Region: HemN_C; pfam06969 935296013999 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 935296014000 active site 935296014001 dimerization interface [polypeptide binding]; other site 935296014002 hypothetical protein; Validated; Region: PRK05090 935296014003 YGGT family; Region: YGGT; pfam02325 935296014004 Predicted integral membrane protein [Function unknown]; Region: COG0762 935296014005 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 935296014006 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 935296014007 catalytic residue [active] 935296014008 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 935296014009 Walker A motif; other site 935296014010 ATP binding site [chemical binding]; other site 935296014011 Walker B motif; other site 935296014012 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 935296014013 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 935296014014 DNA binding residues [nucleotide binding] 935296014015 dimerization interface [polypeptide binding]; other site 935296014016 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 935296014017 hypothetical protein; Validated; Region: PRK00228 935296014018 glutathione synthetase; Provisional; Region: PRK05246 935296014019 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 935296014020 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 935296014021 RNA methyltransferase, RsmE family; Region: TIGR00046 935296014022 DNA-specific endonuclease I; Provisional; Region: PRK15137 935296014023 hypothetical protein; Provisional; Region: PRK04860 935296014024 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 935296014025 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 935296014026 putative substrate translocation pore; other site 935296014027 S-adenosylmethionine synthetase; Validated; Region: PRK05250 935296014028 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 935296014029 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 935296014030 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 935296014031 Virulence promoting factor; Region: YqgB; pfam11036 935296014032 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 935296014033 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 935296014034 dimer interface [polypeptide binding]; other site 935296014035 active site 935296014036 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 935296014037 catalytic residues [active] 935296014038 substrate binding site [chemical binding]; other site 935296014039 type III secretion system chaperone YscW; Region: YscW; TIGR02567 935296014040 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 935296014041 oligomer interface [polypeptide binding]; other site 935296014042 putative active site [active] 935296014043 Mn binding site [ion binding]; other site 935296014044 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 935296014045 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935296014046 putative substrate translocation pore; other site 935296014047 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 935296014048 [2Fe-2S] cluster binding site [ion binding]; other site 935296014049 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 935296014050 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 935296014051 [2Fe-2S] cluster binding site [ion binding]; other site 935296014052 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 935296014053 hydrophobic ligand binding site; other site 935296014054 short chain dehydrogenase; Provisional; Region: PRK12939 935296014055 classical (c) SDRs; Region: SDR_c; cd05233 935296014056 NAD(P) binding site [chemical binding]; other site 935296014057 active site 935296014058 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 935296014059 Transcriptional regulator [Transcription]; Region: IclR; COG1414 935296014060 Bacterial transcriptional regulator; Region: IclR; pfam01614 935296014061 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 935296014062 active site 935296014063 metal binding site [ion binding]; metal-binding site 935296014064 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 935296014065 active site 935296014066 metal binding site [ion binding]; metal-binding site 935296014067 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 935296014068 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935296014069 Reductase C-terminal; Region: Reductase_C; pfam14759 935296014070 D-galactonate transporter; Region: 2A0114; TIGR00893 935296014071 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 935296014072 putative substrate translocation pore; other site 935296014073 Cupin domain; Region: Cupin_2; pfam07883 935296014074 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 935296014075 Putative lysophospholipase; Region: Hydrolase_4; cl19140 935296014076 short chain dehydrogenase; Provisional; Region: PRK07062 935296014077 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935296014078 NAD(P) binding site [chemical binding]; other site 935296014079 active site 935296014080 L-aspartate dehydrogenase; Provisional; Region: PRK13303 935296014081 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 935296014082 Domain of unknown function DUF108; Region: DUF108; pfam01958 935296014083 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 935296014084 NAD(P) binding site [chemical binding]; other site 935296014085 catalytic residues [active] 935296014086 hypothetical protein; Provisional; Region: PRK07064 935296014087 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 935296014088 PYR/PP interface [polypeptide binding]; other site 935296014089 dimer interface [polypeptide binding]; other site 935296014090 TPP binding site [chemical binding]; other site 935296014091 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 935296014092 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 935296014093 TPP-binding site [chemical binding]; other site 935296014094 outer membrane porin, OprD family; Region: OprD; pfam03573 935296014095 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 935296014096 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 935296014097 TPP-binding site [chemical binding]; other site 935296014098 dimer interface [polypeptide binding]; other site 935296014099 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 935296014100 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 935296014101 PYR/PP interface [polypeptide binding]; other site 935296014102 dimer interface [polypeptide binding]; other site 935296014103 TPP binding site [chemical binding]; other site 935296014104 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 935296014105 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 935296014106 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 935296014107 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 935296014108 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 935296014109 substrate binding site [chemical binding]; other site 935296014110 hinge regions; other site 935296014111 ADP binding site [chemical binding]; other site 935296014112 catalytic site [active] 935296014113 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 935296014114 active site 935296014115 intersubunit interface [polypeptide binding]; other site 935296014116 zinc binding site [ion binding]; other site 935296014117 Na+ binding site [ion binding]; other site 935296014118 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 935296014119 putative substrate binding site [chemical binding]; other site 935296014120 nucleotide binding site [chemical binding]; other site 935296014121 nucleotide binding site [chemical binding]; other site 935296014122 homodimer interface [polypeptide binding]; other site 935296014123 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 935296014124 D-galactonate transporter; Region: 2A0114; TIGR00893 935296014125 putative substrate translocation pore; other site 935296014126 membrane protein FdrA; Validated; Region: PRK06091 935296014127 CoA binding domain; Region: CoA_binding; pfam02629 935296014128 CoA-ligase; Region: Ligase_CoA; pfam00549 935296014129 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 935296014130 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 935296014131 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 935296014132 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 935296014133 dimerization interface [polypeptide binding]; other site 935296014134 mechanosensitive channel MscS; Provisional; Region: PRK10334 935296014135 Conserved TM helix; Region: TM_helix; pfam05552 935296014136 Mechanosensitive ion channel; Region: MS_channel; pfam00924 935296014137 arginine exporter protein; Provisional; Region: PRK09304 935296014138 oxidative stress defense protein; Provisional; Region: PRK11087 935296014139 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 935296014140 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296014141 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 935296014142 putative dimerization interface [polypeptide binding]; other site 935296014143 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 935296014144 tetramer (dimer of dimers) interface [polypeptide binding]; other site 935296014145 active site 935296014146 dimer interface [polypeptide binding]; other site 935296014147 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 935296014148 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 935296014149 ligand binding site [chemical binding]; other site 935296014150 NAD binding site [chemical binding]; other site 935296014151 tetramer interface [polypeptide binding]; other site 935296014152 catalytic site [active] 935296014153 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 935296014154 L-serine binding site [chemical binding]; other site 935296014155 ACT domain interface; other site 935296014156 5-formyltetrahydrofolate cyclo-ligase family protein; Provisional; Region: PRK10333 935296014157 Z-ring-associated protein; Provisional; Region: PRK10972 935296014158 hypothetical protein; Reviewed; Region: PRK01736 935296014159 proline aminopeptidase P II; Provisional; Region: PRK10879 935296014160 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 935296014161 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 935296014162 active site 935296014163 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 935296014164 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 935296014165 oxidoreductase; Provisional; Region: PRK08013 935296014166 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 935296014167 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 935296014168 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 935296014169 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 935296014170 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 935296014171 lipoyl attachment site [posttranslational modification]; other site 935296014172 glycine dehydrogenase; Provisional; Region: PRK05367 935296014173 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 935296014174 tetramer interface [polypeptide binding]; other site 935296014175 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296014176 catalytic residue [active] 935296014177 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 935296014178 tetramer interface [polypeptide binding]; other site 935296014179 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296014180 catalytic residue [active] 935296014181 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 935296014182 classical (c) SDRs; Region: SDR_c; cd05233 935296014183 NAD(P) binding site [chemical binding]; other site 935296014184 active site 935296014185 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 935296014186 catalytic residues [active] 935296014187 conjugal transfer protein TrbB; Provisional; Region: PRK13728; cl17283 935296014188 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 935296014189 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 935296014190 catalytic residues [active] 935296014191 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 935296014192 Sulfite exporter TauE/SafE; Region: TauE; cl19196 935296014193 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 935296014194 DsbD alpha interface [polypeptide binding]; other site 935296014195 catalytic residues [active] 935296014196 6-phospho-beta-glucosidase BglA; Provisional; Region: PRK15014 935296014197 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 935296014198 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 935296014199 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 935296014200 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 935296014201 putative active site [active] 935296014202 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 935296014203 hemolysin; Provisional; Region: PRK15087 935296014204 putative global regulator; Reviewed; Region: PRK09559 935296014205 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 935296014206 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 935296014207 hypothetical protein; Provisional; Region: PRK10878 935296014208 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 935296014209 flavodoxin FldB; Provisional; Region: PRK12359 935296014210 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 935296014211 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 935296014212 active site 935296014213 Int/Topo IB signature motif; other site 935296014214 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 935296014215 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 935296014216 dimerization domain [polypeptide binding]; other site 935296014217 dimer interface [polypeptide binding]; other site 935296014218 catalytic residues [active] 935296014219 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 935296014220 DHH family; Region: DHH; pfam01368 935296014221 DHHA1 domain; Region: DHHA1; pfam02272 935296014222 peptide chain release factor 2; Provisional; Region: PRK08787 935296014223 This domain is found in peptide chain release factors; Region: PCRF; smart00937 935296014224 RF-1 domain; Region: RF-1; pfam00472 935296014225 lysyl-tRNA synthetase; Reviewed; Region: PRK12445 935296014226 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 935296014227 dimer interface [polypeptide binding]; other site 935296014228 putative anticodon binding site; other site 935296014229 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 935296014230 motif 1; other site 935296014231 active site 935296014232 motif 2; other site 935296014233 motif 3; other site 935296014234 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 935296014235 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 935296014236 active site 935296014237 metal binding site [ion binding]; metal-binding site 935296014238 nudix motif; other site 935296014239 Protein of unknown function (DUF554); Region: DUF554; pfam04474 935296014240 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 935296014241 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 935296014242 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296014243 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296014244 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 935296014245 dimerization interface [polypeptide binding]; other site 935296014246 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 935296014247 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 935296014248 Peptidase family M23; Region: Peptidase_M23; pfam01551 935296014249 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 935296014250 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 935296014251 active site 935296014252 catalytic residues [active] 935296014253 DNA binding site [nucleotide binding] 935296014254 Int/Topo IB signature motif; other site 935296014255 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 935296014256 MAEBL; Provisional; Region: PTZ00121 935296014257 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 935296014258 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 935296014259 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 935296014260 active site 935296014261 DNA binding site [nucleotide binding] 935296014262 Int/Topo IB signature motif; other site 935296014263 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 935296014264 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 935296014265 Nucleoside recognition; Region: Gate; pfam07670 935296014266 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 935296014267 outer membrane porin, OprD family; Region: OprD; pfam03573 935296014268 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 935296014269 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 935296014270 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 935296014271 DNA binding site [nucleotide binding] 935296014272 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 935296014273 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 935296014274 PapC N-terminal domain; Region: PapC_N; pfam13954 935296014275 Outer membrane usher protein; Region: Usher; pfam00577 935296014276 Outer membrane usher protein; Region: Usher; pfam00577 935296014277 PapC C-terminal domain; Region: PapC_C; pfam13953 935296014278 putative fimbrial chaperone protein StfD; Provisional; Region: PRK15285 935296014279 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 935296014280 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 935296014281 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 935296014282 Fimbrial protein; Region: Fimbrial; cl01416 935296014283 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 935296014284 O-Antigen ligase; Region: Wzy_C; pfam04932 935296014285 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 935296014286 Transposase IS200 like; Region: Y1_Tnp; cl00848 935296014287 histidyl-tRNA synthetase; Region: hisS; TIGR00442 935296014288 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 935296014289 motif 1; other site 935296014290 dimer interface [polypeptide binding]; other site 935296014291 active site 935296014292 motif 2; other site 935296014293 motif 3; other site 935296014294 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 935296014295 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 935296014296 dimer interface [polypeptide binding]; other site 935296014297 motif 1; other site 935296014298 active site 935296014299 motif 2; other site 935296014300 motif 3; other site 935296014301 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 935296014302 anticodon binding site; other site 935296014303 histidine decarboxylase; Provisional; Region: PRK02769 935296014304 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 935296014305 catalytic residue [active] 935296014306 histidine-histamine antiporter; Region: his_histam_anti; TIGR04298 935296014307 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 935296014308 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 935296014309 putative heme binding pocket [chemical binding]; other site 935296014310 Transcriptional regulators [Transcription]; Region: PurR; COG1609 935296014311 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 935296014312 DNA binding site [nucleotide binding] 935296014313 domain linker motif; other site 935296014314 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 935296014315 putative dimerization interface [polypeptide binding]; other site 935296014316 putative ligand binding site [chemical binding]; other site 935296014317 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 935296014318 active site 935296014319 dimerization interface [polypeptide binding]; other site 935296014320 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 935296014321 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 935296014322 putative substrate translocation pore; other site 935296014323 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 935296014324 catalytic core [active] 935296014325 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 935296014326 nickel/cobalt efflux protein RcnA; Provisional; Region: PRK10019 935296014327 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 935296014328 putative metal binding site [ion binding]; other site 935296014329 putative homodimer interface [polypeptide binding]; other site 935296014330 putative homotetramer interface [polypeptide binding]; other site 935296014331 putative homodimer-homodimer interface [polypeptide binding]; other site 935296014332 putative allosteric switch controlling residues; other site 935296014333 putrescine transporter; Provisional; Region: potE; PRK10655 935296014334 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 935296014335 ornithine decarboxylase; Provisional; Region: PRK13578 935296014336 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 935296014337 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 935296014338 homodimer interface [polypeptide binding]; other site 935296014339 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296014340 catalytic residue [active] 935296014341 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 935296014342 POT family; Region: PTR2; cl17359 935296014343 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 935296014344 putative substrate translocation pore; other site 935296014345 putative outer membrane efflux protein MdtP; Provisional; Region: PRK09915 935296014346 Outer membrane efflux protein; Region: OEP; pfam02321 935296014347 Outer membrane efflux protein; Region: OEP; pfam02321 935296014348 multidrug efflux system protein MdtO; Provisional; Region: PRK11427 935296014349 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 935296014350 multidrug resistance protein MdtN; Provisional; Region: PRK10476 935296014351 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 935296014352 HlyD family secretion protein; Region: HlyD_3; pfam13437 935296014353 Uncharacterized conserved protein [Function unknown]; Region: COG3592 935296014354 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296014355 Coenzyme A binding pocket [chemical binding]; other site 935296014356 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 935296014357 Mannose binding domain of FimH and related proteins; Region: FimH_man-bind; cd10466 935296014358 mannosyl binding site [chemical binding]; other site 935296014359 Fimbrial protein; Region: Fimbrial; cl01416 935296014360 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 935296014361 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 935296014362 outer membrane usher protein; Provisional; Region: PRK15193 935296014363 PapC N-terminal domain; Region: PapC_N; pfam13954 935296014364 Outer membrane usher protein; Region: Usher; pfam00577 935296014365 PapC C-terminal domain; Region: PapC_C; pfam13953 935296014366 fimbrial chaperone protein FimC; Provisional; Region: PRK15195 935296014367 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 935296014368 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 935296014369 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 935296014370 Fimbrial protein; Region: Fimbrial; cl01416 935296014371 FimB and FimE and related proteins, DNA breaking-rejoining enzymes, integrase/recombinases, catalytic domain. This CD includes those proteins similar to E.coli FimE and FimB regulatory proteins and Proteus mirabilis MrpI; Region: INT_FimBE_C; cd01197 935296014372 Int/Topo IB signature motif; other site 935296014373 FimB and FimE and related proteins, DNA breaking-rejoining enzymes, integrase/recombinases, catalytic domain. This CD includes those proteins similar to E.coli FimE and FimB regulatory proteins and Proteus mirabilis MrpI; Region: INT_FimBE_C; cd01197 935296014374 Int/Topo IB signature motif; other site 935296014375 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 935296014376 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 935296014377 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 935296014378 putative DNA binding site [nucleotide binding]; other site 935296014379 putative Zn2+ binding site [ion binding]; other site 935296014380 AsnC family; Region: AsnC_trans_reg; pfam01037 935296014381 Fimbrial protein; Region: Fimbrial; cl01416 935296014382 putative fimbrial assembly chaperone protein StcB; Provisional; Region: PRK15253 935296014383 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 935296014384 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 935296014385 fimbrial outer membrane usher protein; Provisional; Region: PRK15217 935296014386 PapC N-terminal domain; Region: PapC_N; pfam13954 935296014387 Outer membrane usher protein; Region: Usher; pfam00577 935296014388 PapC C-terminal domain; Region: PapC_C; pfam13953 935296014389 Fimbrial protein; Region: Fimbrial; cl01416 935296014390 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 935296014391 metabolite-proton symporter; Region: 2A0106; TIGR00883 935296014392 putative substrate translocation pore; other site 935296014393 Flavin Reductases; Region: FlaRed; cl00801 935296014394 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 935296014395 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 935296014396 FMN-binding pocket [chemical binding]; other site 935296014397 flavin binding motif; other site 935296014398 phosphate binding motif [ion binding]; other site 935296014399 NAD binding pocket [chemical binding]; other site 935296014400 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 935296014401 catalytic loop [active] 935296014402 iron binding site [ion binding]; other site 935296014403 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 935296014404 classical (c) SDRs; Region: SDR_c; cd05233 935296014405 NAD(P) binding site [chemical binding]; other site 935296014406 active site 935296014407 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 935296014408 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 935296014409 [2Fe-2S] cluster binding site [ion binding]; other site 935296014410 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 935296014411 putative alpha subunit interface [polypeptide binding]; other site 935296014412 putative active site [active] 935296014413 putative substrate binding site [chemical binding]; other site 935296014414 Fe binding site [ion binding]; other site 935296014415 SnoaL-like domain; Region: SnoaL_4; pfam13577 935296014416 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 935296014417 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 935296014418 active site 935296014419 Amidase; Region: Amidase; cl11426 935296014420 Transcriptional regulators [Transcription]; Region: MarR; COG1846 935296014421 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; cl17220 935296014422 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 935296014423 Transcriptional regulators [Transcription]; Region: MarR; COG1846 935296014424 EamA-like transporter family; Region: EamA; pfam00892 935296014425 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 935296014426 EamA-like transporter family; Region: EamA; pfam00892 935296014427 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 935296014428 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 935296014429 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 935296014430 dimerization interface [polypeptide binding]; other site 935296014431 putative DNA binding site [nucleotide binding]; other site 935296014432 putative Zn2+ binding site [ion binding]; other site 935296014433 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 935296014434 DNA binding residues [nucleotide binding] 935296014435 dimerization interface [polypeptide binding]; other site 935296014436 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 935296014437 active site 935296014438 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 935296014439 catalytic tetrad [active] 935296014440 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 935296014441 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 935296014442 Predicted membrane protein [Function unknown]; Region: COG4125 935296014443 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 935296014444 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 935296014445 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296014446 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296014447 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 935296014448 dimerization interface [polypeptide binding]; other site 935296014449 putative acyltransferase; Provisional; Region: PRK05790 935296014450 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 935296014451 dimer interface [polypeptide binding]; other site 935296014452 active site 935296014453 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 935296014454 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 935296014455 NADP binding site [chemical binding]; other site 935296014456 homodimer interface [polypeptide binding]; other site 935296014457 active site 935296014458 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 935296014459 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 935296014460 putative substrate translocation pore; other site 935296014461 Transcriptional regulators [Transcription]; Region: PurR; COG1609 935296014462 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 935296014463 DNA binding site [nucleotide binding] 935296014464 domain linker motif; other site 935296014465 Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_sucrose_transcription_regulator; cd06288 935296014466 putative dimerization interface [polypeptide binding]; other site 935296014467 putative ligand binding site [chemical binding]; other site 935296014468 galactoside permease; Reviewed; Region: lacY; PRK09528 935296014469 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 935296014470 putative substrate translocation pore; other site 935296014471 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 935296014472 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 935296014473 substrate binding [chemical binding]; other site 935296014474 active site 935296014475 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 935296014476 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 935296014477 putative racemase; Provisional; Region: PRK10200 935296014478 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 935296014479 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296014480 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 935296014481 dimerization interface [polypeptide binding]; other site 935296014482 diaminopimelate decarboxylase; Provisional; Region: PRK11165 935296014483 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 935296014484 active site 935296014485 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 935296014486 substrate binding site [chemical binding]; other site 935296014487 catalytic residues [active] 935296014488 dimer interface [polypeptide binding]; other site 935296014489 Transcriptional regulators [Transcription]; Region: PurR; COG1609 935296014490 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 935296014491 DNA binding site [nucleotide binding] 935296014492 domain linker motif; other site 935296014493 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 935296014494 dimerization interface (closed form) [polypeptide binding]; other site 935296014495 ligand binding site [chemical binding]; other site 935296014496 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 935296014497 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296014498 Coenzyme A binding pocket [chemical binding]; other site 935296014499 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 935296014500 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 935296014501 DNA binding site [nucleotide binding] 935296014502 domain linker motif; other site 935296014503 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 935296014504 dimerization interface (closed form) [polypeptide binding]; other site 935296014505 ligand binding site [chemical binding]; other site 935296014506 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 935296014507 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 935296014508 putative acyl-acceptor binding pocket; other site 935296014509 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 935296014510 acyl-activating enzyme (AAE) consensus motif; other site 935296014511 putative AMP binding site [chemical binding]; other site 935296014512 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 935296014513 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935296014514 putative substrate translocation pore; other site 935296014515 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 935296014516 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 935296014517 active site 935296014518 catalytic tetrad [active] 935296014519 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 935296014520 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 935296014521 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 935296014522 putative DNA-binding cleft [nucleotide binding]; other site 935296014523 putative DNA clevage site; other site 935296014524 molecular lever; other site 935296014525 RNA pyrophosphohydrolase; Reviewed; Region: PRK00714 935296014526 RNA pyrophosphohydrolase; Reviewed; Region: PRK00714 935296014527 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 935296014528 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 935296014529 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 935296014530 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 935296014531 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 935296014532 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 935296014533 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 935296014534 dimerization interface [polypeptide binding]; other site 935296014535 active site 935296014536 hypothetical protein; Provisional; Region: PRK10506 935296014537 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 935296014538 hypothetical protein; Provisional; Region: PRK10557 935296014539 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 935296014540 Protein of unknown function (DUF2509); Region: DUF2509; cl11672 935296014541 Prepilin peptidase dependent protein C (DUF3728); Region: DUF3728; cl19725 935296014542 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 935296014543 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 935296014544 protease3; Provisional; Region: PRK15101 935296014545 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 935296014546 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 935296014547 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 935296014548 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 935296014549 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 935296014550 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 935296014551 AAA domain; Region: AAA_30; pfam13604 935296014552 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 935296014553 N-acetylglutamate synthase; Validated; Region: PRK05279 935296014554 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 935296014555 putative feedback inhibition sensing region; other site 935296014556 putative nucleotide binding site [chemical binding]; other site 935296014557 putative substrate binding site [chemical binding]; other site 935296014558 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 935296014559 Coenzyme A binding pocket [chemical binding]; other site 935296014560 AMIN domain; Region: AMIN; pfam11741 935296014561 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 935296014562 active site 935296014563 metal binding site [ion binding]; metal-binding site 935296014564 murein transglycosylase A; Provisional; Region: mltA; PRK11162 935296014565 MltA specific insert domain; Region: MltA; smart00925 935296014566 3D domain; Region: 3D; pfam06725 935296014567 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 935296014568 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 935296014569 putative ATP binding site [chemical binding]; other site 935296014570 putative substrate interface [chemical binding]; other site 935296014571 Fe-S metabolizm associated domain; Region: SufE; cl00951 935296014572 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 935296014573 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 935296014574 catalytic residue [active] 935296014575 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 935296014576 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296014577 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 935296014578 dimerization interface [polypeptide binding]; other site 935296014579 substrate binding pocket [chemical binding]; other site 935296014580 hypothetical protein; Provisional; Region: PRK10873 935296014581 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 935296014582 FtsJ-like methyltransferase; Region: FtsJ; cl17430 935296014583 flap endonuclease-like protein; Provisional; Region: PRK09482 935296014584 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 935296014585 active site 935296014586 metal binding site 1 [ion binding]; metal-binding site 935296014587 putative 5' ssDNA interaction site; other site 935296014588 metal binding site 3; metal-binding site 935296014589 metal binding site 2 [ion binding]; metal-binding site 935296014590 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 935296014591 putative DNA binding site [nucleotide binding]; other site 935296014592 putative metal binding site [ion binding]; other site 935296014593 L-serine dehydratase TdcG; Provisional; Region: PRK15040 935296014594 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 935296014595 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 935296014596 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 935296014597 serine transporter; Region: stp; TIGR00814 935296014598 Domain of unknown function (DUF4478); Region: DUF4478; pfam14793 935296014599 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 935296014600 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 935296014601 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 935296014602 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 935296014603 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 935296014604 SecY interacting protein Syd; Provisional; Region: PRK04968 935296014605 tRNA pseudouridine synthase C; Region: DUF446; cl01187 935296014606 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 935296014607 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 935296014608 probable active site [active] 935296014609 flavodoxin; Provisional; Region: PRK08105 935296014610 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 935296014611 D-galactonate transporter; Region: 2A0114; TIGR00893 935296014612 putative substrate translocation pore; other site 935296014613 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 935296014614 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 935296014615 active site 935296014616 tetramer interface [polypeptide binding]; other site 935296014617 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 935296014618 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 935296014619 active site 935296014620 tetramer interface [polypeptide binding]; other site 935296014621 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 935296014622 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 935296014623 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 935296014624 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 935296014625 dimerization interface [polypeptide binding]; other site 935296014626 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 935296014627 dimer interface [polypeptide binding]; other site 935296014628 phosphorylation site [posttranslational modification] 935296014629 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 935296014630 ATP binding site [chemical binding]; other site 935296014631 Mg2+ binding site [ion binding]; other site 935296014632 G-X-G motif; other site 935296014633 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 935296014634 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 935296014635 active site 935296014636 phosphorylation site [posttranslational modification] 935296014637 intermolecular recognition site; other site 935296014638 dimerization interface [polypeptide binding]; other site 935296014639 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 935296014640 putative binding surface; other site 935296014641 active site 935296014642 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 935296014643 TRAM domain; Region: TRAM; pfam01938 935296014644 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 935296014645 S-adenosylmethionine binding site [chemical binding]; other site 935296014646 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 935296014647 HD domain; Region: HD_4; pfam13328 935296014648 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 935296014649 synthetase active site [active] 935296014650 NTP binding site [chemical binding]; other site 935296014651 metal binding site [ion binding]; metal-binding site 935296014652 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 935296014653 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 935296014654 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 935296014655 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 935296014656 homodimer interface [polypeptide binding]; other site 935296014657 metal binding site [ion binding]; metal-binding site 935296014658 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 935296014659 homodimer interface [polypeptide binding]; other site 935296014660 active site 935296014661 putative chemical substrate binding site [chemical binding]; other site 935296014662 metal binding site [ion binding]; metal-binding site 935296014663 CTP synthetase; Validated; Region: pyrG; PRK05380 935296014664 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 935296014665 Catalytic site [active] 935296014666 active site 935296014667 UTP binding site [chemical binding]; other site 935296014668 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 935296014669 active site 935296014670 putative oxyanion hole; other site 935296014671 catalytic triad [active] 935296014672 enolase; Provisional; Region: eno; PRK00077 935296014673 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 935296014674 dimer interface [polypeptide binding]; other site 935296014675 metal binding site [ion binding]; metal-binding site 935296014676 substrate binding pocket [chemical binding]; other site 935296014677 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 935296014678 Male sterility protein; Region: NAD_binding_4; pfam07993 935296014679 NAD(P) binding site [chemical binding]; other site 935296014680 active site 935296014681 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 935296014682 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 935296014683 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 935296014684 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 935296014685 NADP binding site [chemical binding]; other site 935296014686 homodimer interface [polypeptide binding]; other site 935296014687 active site 935296014688 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 935296014689 active site 935296014690 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 935296014691 Flavodoxin; Region: Flavodoxin_1; pfam00258 935296014692 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 935296014693 FAD binding pocket [chemical binding]; other site 935296014694 FAD binding motif [chemical binding]; other site 935296014695 catalytic residues [active] 935296014696 NAD binding pocket [chemical binding]; other site 935296014697 phosphate binding motif [ion binding]; other site 935296014698 beta-alpha-beta structure motif; other site 935296014699 sulfite reductase subunit beta; Provisional; Region: PRK13504 935296014700 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 935296014701 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 935296014702 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 935296014703 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; cl19102 935296014704 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 935296014705 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 935296014706 Active Sites [active] 935296014707 alkaline phosphatase isozyme conversion aminopeptidase; Provisional; Region: PRK10199 935296014708 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 935296014709 metal binding site [ion binding]; metal-binding site 935296014710 siroheme synthase; Provisional; Region: cysG; PRK10637 935296014711 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 935296014712 Sirohaem biosynthesis protein central; Region: Sirohm_synth_M; pfam14824 935296014713 Sirohaem synthase dimerization region; Region: CysG_dimeriser; pfam10414 935296014714 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 935296014715 active site 935296014716 SAM binding site [chemical binding]; other site 935296014717 homodimer interface [polypeptide binding]; other site 935296014718 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 935296014719 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 935296014720 Active Sites [active] 935296014721 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 935296014722 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 935296014723 CysD dimerization site [polypeptide binding]; other site 935296014724 G1 box; other site 935296014725 putative GEF interaction site [polypeptide binding]; other site 935296014726 GTP/Mg2+ binding site [chemical binding]; other site 935296014727 Switch I region; other site 935296014728 G2 box; other site 935296014729 G3 box; other site 935296014730 Switch II region; other site 935296014731 G4 box; other site 935296014732 G5 box; other site 935296014733 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 935296014734 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 935296014735 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 935296014736 ligand-binding site [chemical binding]; other site 935296014737 Protein of unknown function (DUF3561); Region: DUF3561; pfam12084 935296014738 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 935296014739 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 935296014740 substrate binding site; other site 935296014741 dimer interface; other site 935296014742 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 935296014743 homotrimer interaction site [polypeptide binding]; other site 935296014744 zinc binding site [ion binding]; other site 935296014745 CDP-binding sites; other site 935296014746 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 935296014747 Permutation of conserved domain; other site 935296014748 active site 935296014749 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 935296014750 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 935296014751 S-adenosylmethionine binding site [chemical binding]; other site 935296014752 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 935296014753 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 935296014754 Peptidase family M23; Region: Peptidase_M23; pfam01551 935296014755 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 935296014756 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 935296014757 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 935296014758 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 935296014759 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 935296014760 DNA binding residues [nucleotide binding] 935296014761 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 935296014762 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296014763 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296014764 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 935296014765 putative effector binding pocket; other site 935296014766 dimerization interface [polypeptide binding]; other site 935296014767 Transcriptional regulators [Transcription]; Region: MarR; COG1846 935296014768 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 935296014769 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 935296014770 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 935296014771 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 935296014772 Fimbrial protein; Region: Fimbrial; cl01416 935296014773 fimbrial assembly chaperone SthB; Provisional; Region: PRK15295 935296014774 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 935296014775 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 935296014776 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 935296014777 PapC N-terminal domain; Region: PapC_N; pfam13954 935296014778 Outer membrane usher protein; Region: Usher; pfam00577 935296014779 PapC C-terminal domain; Region: PapC_C; pfam13953 935296014780 Fimbrial protein; Region: Fimbrial; cl01416 935296014781 Fimbrial protein; Region: Fimbrial; cl01416 935296014782 putative major fimbrial protein SthE; Provisional; Region: PRK15292 935296014783 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 935296014784 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 935296014785 MutS domain I; Region: MutS_I; pfam01624 935296014786 MutS domain II; Region: MutS_II; pfam05188 935296014787 MutS domain III; Region: MutS_III; pfam05192 935296014788 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 935296014789 Walker A/P-loop; other site 935296014790 ATP binding site [chemical binding]; other site 935296014791 Q-loop/lid; other site 935296014792 ABC transporter signature motif; other site 935296014793 Walker B; other site 935296014794 D-loop; other site 935296014795 H-loop/switch region; other site 935296014796 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 935296014797 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 935296014798 Walker A/P-loop; other site 935296014799 ATP binding site [chemical binding]; other site 935296014800 Q-loop/lid; other site 935296014801 ABC transporter signature motif; other site 935296014802 Walker B; other site 935296014803 D-loop; other site 935296014804 H-loop/switch region; other site 935296014805 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 935296014806 ABC-ATPase subunit interface; other site 935296014807 dimer interface [polypeptide binding]; other site 935296014808 putative PBP binding regions; other site 935296014809 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 935296014810 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 935296014811 putative hemin binding site; other site 935296014812 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 935296014813 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 935296014814 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 935296014815 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 935296014816 N-terminal plug; other site 935296014817 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 935296014818 ligand-binding site [chemical binding]; other site 935296014819 Rdx family; Region: Rdx; cl01407 935296014820 acetolactate synthase catalytic subunit; Validated; Region: PRK08327 935296014821 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 935296014822 PYR/PP interface [polypeptide binding]; other site 935296014823 dimer interface [polypeptide binding]; other site 935296014824 TPP binding site [chemical binding]; other site 935296014825 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 935296014826 F0F1 ATP synthase subunit B; Provisional; Region: PRK14471; cl17192 935296014827 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 935296014828 TPP-binding site [chemical binding]; other site 935296014829 Membrane transport protein; Region: Mem_trans; cl09117 935296014830 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296014831 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296014832 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 935296014833 dimerization interface [polypeptide binding]; other site 935296014834 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 935296014835 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 935296014836 ABC-ATPase subunit interface; other site 935296014837 dimer interface [polypeptide binding]; other site 935296014838 putative PBP binding regions; other site 935296014839 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 935296014840 ABC-ATPase subunit interface; other site 935296014841 dimer interface [polypeptide binding]; other site 935296014842 putative PBP binding regions; other site 935296014843 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 935296014844 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 935296014845 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 935296014846 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 935296014847 metal binding site [ion binding]; metal-binding site 935296014848 formate hydrogenlyase transcriptional activator FhlA; Provisional; Region: PRK15429 935296014849 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 935296014850 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 935296014851 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 935296014852 Walker A motif; other site 935296014853 ATP binding site [chemical binding]; other site 935296014854 Walker B motif; other site 935296014855 arginine finger; other site 935296014856 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 935296014857 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 935296014858 dimerization interface [polypeptide binding]; other site 935296014859 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 935296014860 ATP binding site [chemical binding]; other site 935296014861 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 935296014862 hydrogenase assembly chaperone; Provisional; Region: PRK10409 935296014863 hydrogenase nickel incorporation protein HypB; Provisional; Region: PRK10463 935296014864 hydrogenase nickel incorporation protein; Validated; Region: hypA; PRK03681 935296014865 formate hydrogenlyase regulatory protein HycA; Provisional; Region: PRK10198 935296014866 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 935296014867 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; cl19102 935296014868 formate hydrogenlyase subunit 3; Reviewed; Region: PRK08042 935296014869 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 935296014870 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 935296014871 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 935296014872 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 935296014873 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 935296014874 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 935296014875 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; cl19102 935296014876 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 935296014877 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 935296014878 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 935296014879 nickel binding site [ion binding]; other site 935296014880 cryptic 6-phospho-beta-glucosidase; Provisional; Region: PRK09852 935296014881 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 935296014882 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional; Region: PRK09796 935296014883 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 935296014884 active site turn [active] 935296014885 phosphorylation site [posttranslational modification] 935296014886 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 935296014887 Transcriptional regulators [Transcription]; Region: PurR; COG1609 935296014888 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 935296014889 DNA binding site [nucleotide binding] 935296014890 domain linker motif; other site 935296014891 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 935296014892 dimerization interface (closed form) [polypeptide binding]; other site 935296014893 ligand binding site [chemical binding]; other site 935296014894 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 935296014895 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; cl19102 935296014896 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 935296014897 Acylphosphatase; Region: Acylphosphatase; pfam00708 935296014898 HypF finger; Region: zf-HYPF; pfam07503 935296014899 HypF finger; Region: zf-HYPF; pfam07503 935296014900 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 935296014901 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 935296014902 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 935296014903 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 935296014904 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 935296014905 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 935296014906 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 935296014907 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 935296014908 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 935296014909 iron binding site [ion binding]; other site 935296014910 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 935296014911 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 935296014912 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 935296014913 Walker A motif; other site 935296014914 ATP binding site [chemical binding]; other site 935296014915 Walker B motif; other site 935296014916 arginine finger; other site 935296014917 D-arabinose 5-phosphate isomerase; Provisional; Region: gutQ; PRK11543 935296014918 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 935296014919 putative active site [active] 935296014920 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 935296014921 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 935296014922 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 935296014923 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 935296014924 DNA-binding transcriptional activator GutM; Provisional; Region: PRK10234 935296014925 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 935296014926 Sorbitol 6-phosphate dehydrogenase (SDH), classical (c) SDRs; Region: SDH_SDR_c_like; cd05322 935296014927 putative NAD(P) binding site [chemical binding]; other site 935296014928 active site 935296014929 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 935296014930 Phosphotransferase system sorbitol-specific component IIBC [Carbohydrate transport and metabolism]; Region: SrlE; COG3732 935296014931 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 935296014932 Nucleoside recognition; Region: Gate; pfam07670 935296014933 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 935296014934 PTS system, glucitol/sorbitol-specific, IIC component; Region: EII-GUT; TIGR00821 935296014935 murein hydrolase B; Provisional; Region: PRK10760 935296014936 lytic murein transglycosylase B; Region: MltB; TIGR02282 935296014937 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 935296014938 N-acetyl-D-glucosamine binding site [chemical binding]; other site 935296014939 catalytic residue [active] 935296014940 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296014941 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 935296014942 Walker A/P-loop; other site 935296014943 ATP binding site [chemical binding]; other site 935296014944 Q-loop/lid; other site 935296014945 ABC transporter signature motif; other site 935296014946 Walker B; other site 935296014947 D-loop; other site 935296014948 H-loop/switch region; other site 935296014949 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 935296014950 ABC-ATPase subunit interface; other site 935296014951 dimer interface [polypeptide binding]; other site 935296014952 putative PBP binding regions; other site 935296014953 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 935296014954 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 935296014955 metal binding site [ion binding]; metal-binding site 935296014956 hypothetical protein; Validated; Region: PRK03661 935296014957 recombinase A; Provisional; Region: recA; PRK09354 935296014958 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 935296014959 hexamer interface [polypeptide binding]; other site 935296014960 Walker A motif; other site 935296014961 ATP binding site [chemical binding]; other site 935296014962 Walker B motif; other site 935296014963 recombination regulator RecX; Reviewed; Region: recX; PRK00117 935296014964 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 935296014965 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 935296014966 active site 935296014967 motif 2; other site 935296014968 motif 3; other site 935296014969 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 935296014970 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 935296014971 DHHA1 domain; Region: DHHA1; pfam02272 935296014972 carbon storage regulator; Provisional; Region: PRK01712 935296014973 BON domain; Region: BON; pfam04972 935296014974 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 935296014975 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 935296014976 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 935296014977 motif II; other site 935296014978 Predicted membrane protein [Function unknown]; Region: COG1238 935296014979 glutamate--cysteine ligase; Provisional; Region: PRK02107 935296014980 S-ribosylhomocysteinase; Provisional; Region: PRK02260 935296014981 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 935296014982 Helix-turn-helix domain; Region: HTH_18; pfam12833 935296014983 2-isopropylmalate synthase; Validated; Region: PRK03739 935296014984 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 935296014985 active site 935296014986 catalytic residues [active] 935296014987 metal binding site [ion binding]; metal-binding site 935296014988 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 935296014989 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 935296014990 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 935296014991 putative substrate translocation pore; other site 935296014992 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 935296014993 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 935296014994 HlyD family secretion protein; Region: HlyD_3; pfam13437 935296014995 transcriptional repressor MprA; Provisional; Region: PRK10870 935296014996 Transcriptional regulators [Transcription]; Region: MarR; COG1846 935296014997 putative L-valine exporter; Provisional; Region: PRK10408 935296014998 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 935296014999 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 935296015000 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 935296015001 dimer interface [polypeptide binding]; other site 935296015002 conserved gate region; other site 935296015003 putative PBP binding loops; other site 935296015004 ABC-ATPase subunit interface; other site 935296015005 glycine betaine transporter ATP-binding subunit; Provisional; Region: PRK10070 935296015006 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 935296015007 Walker A/P-loop; other site 935296015008 ATP binding site [chemical binding]; other site 935296015009 Q-loop/lid; other site 935296015010 ABC transporter signature motif; other site 935296015011 Walker B; other site 935296015012 D-loop; other site 935296015013 H-loop/switch region; other site 935296015014 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 935296015015 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 935296015016 dimer interface [polypeptide binding]; other site 935296015017 putative radical transfer pathway; other site 935296015018 diiron center [ion binding]; other site 935296015019 tyrosyl radical; other site 935296015020 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 935296015021 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 935296015022 Class I ribonucleotide reductase; Region: RNR_I; cd01679 935296015023 active site 935296015024 dimer interface [polypeptide binding]; other site 935296015025 catalytic residues [active] 935296015026 effector binding site; other site 935296015027 R2 peptide binding site; other site 935296015028 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 935296015029 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 935296015030 catalytic residues [active] 935296015031 Uncharacterized conserved protein [Function unknown]; Region: COG2128 935296015032 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 935296015033 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 935296015034 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 935296015035 DNA-binding site [nucleotide binding]; DNA binding site 935296015036 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 935296015037 pyridoxal 5'-phosphate binding site [chemical binding]; other site 935296015038 homodimer interface [polypeptide binding]; other site 935296015039 catalytic residue [active] 935296015040 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 935296015041 hypothetical protein; Provisional; Region: PRK10556 935296015042 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 935296015043 Domain in histone-like proteins of HNS family; Region: HNS; cl19571 935296015044 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 935296015045 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 935296015046 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 935296015047 active site residue [active] 935296015048 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 935296015049 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 935296015050 dimerization interface [polypeptide binding]; other site 935296015051 putative DNA binding site [nucleotide binding]; other site 935296015052 Transcriptional regulators [Transcription]; Region: MarR; COG1846 935296015053 putative Zn2+ binding site [ion binding]; other site 935296015054 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 935296015055 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296015056 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296015057 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 935296015058 putative effector binding pocket; other site 935296015059 putative dimerization interface [polypeptide binding]; other site 935296015060 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 935296015061 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 935296015062 active site 935296015063 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 935296015064 GAF domain; Region: GAF; pfam01590 935296015065 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 935296015066 Walker A motif; other site 935296015067 ATP binding site [chemical binding]; other site 935296015068 Walker B motif; other site 935296015069 arginine finger; other site 935296015070 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 935296015071 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II and Staphylococcus aureus AldA1 (SACOL0154)-like; Region: ALDH_ACDHII_AcoD-like; cd07559 935296015072 NAD(P) binding site [chemical binding]; other site 935296015073 catalytic residues [active] 935296015074 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 935296015075 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935296015076 Walker A/P-loop; other site 935296015077 ATP binding site [chemical binding]; other site 935296015078 Q-loop/lid; other site 935296015079 ABC transporter signature motif; other site 935296015080 Walker B; other site 935296015081 D-loop; other site 935296015082 H-loop/switch region; other site 935296015083 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 935296015084 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 935296015085 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 935296015086 Walker A/P-loop; other site 935296015087 ATP binding site [chemical binding]; other site 935296015088 Q-loop/lid; other site 935296015089 ABC transporter signature motif; other site 935296015090 Walker B; other site 935296015091 D-loop; other site 935296015092 H-loop/switch region; other site 935296015093 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 935296015094 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 935296015095 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 935296015096 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 935296015097 dimer interface [polypeptide binding]; other site 935296015098 conserved gate region; other site 935296015099 putative PBP binding loops; other site 935296015100 ABC-ATPase subunit interface; other site 935296015101 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 935296015102 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 935296015103 dimer interface [polypeptide binding]; other site 935296015104 conserved gate region; other site 935296015105 putative PBP binding loops; other site 935296015106 ABC-ATPase subunit interface; other site 935296015107 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 935296015108 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 935296015109 D-alanyl-D-alanine dipeptidase; Provisional; Region: PRK10178 935296015110 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 935296015111 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 935296015112 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 935296015113 trimer interface [polypeptide binding]; other site 935296015114 active site 935296015115 substrate binding site [chemical binding]; other site 935296015116 CoA binding site [chemical binding]; other site 935296015117 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 935296015118 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 935296015119 substrate binding pocket [chemical binding]; other site 935296015120 membrane-bound complex binding site; other site 935296015121 hinge residues; other site 935296015122 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 935296015123 classical (c) SDRs; Region: SDR_c; cd05233 935296015124 NAD(P) binding site [chemical binding]; other site 935296015125 active site 935296015126 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 935296015127 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 935296015128 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935296015129 putative substrate translocation pore; other site 935296015130 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 935296015131 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 935296015132 Walker A/P-loop; other site 935296015133 ATP binding site [chemical binding]; other site 935296015134 Q-loop/lid; other site 935296015135 ABC transporter signature motif; other site 935296015136 Walker B; other site 935296015137 D-loop; other site 935296015138 H-loop/switch region; other site 935296015139 heme exporter protein CcmB; Region: ccmB; TIGR01190 935296015140 heme exporter protein CcmC; Region: ccmC; TIGR01191 935296015141 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 935296015142 CcmE; Region: CcmE; cl00994 935296015143 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 935296015144 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 935296015145 catalytic residues [active] 935296015146 central insert; other site 935296015147 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 935296015148 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 935296015149 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 935296015150 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 935296015151 binding surface 935296015152 TPR motif; other site 935296015153 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 935296015154 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 935296015155 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 935296015156 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 935296015157 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 935296015158 molybdopterin cofactor binding site [chemical binding]; other site 935296015159 substrate binding site [chemical binding]; other site 935296015160 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 935296015161 molybdopterin cofactor binding site; other site 935296015162 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 935296015163 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 935296015164 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 935296015165 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 935296015166 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 935296015167 NADP+ binding site [chemical binding]; other site 935296015168 folate binding site [chemical binding]; other site 935296015169 Nucleotidyltransferase domain; Region: NTP_transf_2; pfam01909 935296015170 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 935296015171 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 935296015172 Protein of unknown function (DUF987); Region: DUF987; pfam06174 935296015173 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 935296015174 MPN+ (JAMM) motif; other site 935296015175 Zinc-binding site [ion binding]; other site 935296015176 Antirestriction protein; Region: Antirestrict; pfam03230 935296015177 Domain of unknown function (DUF932); Region: DUF932; pfam06067 935296015178 Bacterial protein of unknown function (DUF905); Region: DUF905; pfam06006 935296015179 Predicted GTPase [General function prediction only]; Region: COG3596 935296015180 YfjP GTPase; Region: YfjP; cd11383 935296015181 G1 box; other site 935296015182 GTP/Mg2+ binding site [chemical binding]; other site 935296015183 Switch I region; other site 935296015184 G2 box; other site 935296015185 Switch II region; other site 935296015186 G3 box; other site 935296015187 G4 box; other site 935296015188 G5 box; other site 935296015189 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 935296015190 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 935296015191 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 935296015192 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 935296015193 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 935296015194 Walker A/P-loop; other site 935296015195 ATP binding site [chemical binding]; other site 935296015196 AAA domain; Region: AAA_21; pfam13304 935296015197 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 935296015198 putative active site [active] 935296015199 putative metal-binding site [ion binding]; other site 935296015200 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 935296015201 Part of AAA domain; Region: AAA_19; pfam13245 935296015202 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; cl19402 935296015203 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 935296015204 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 935296015205 FRG domain; Region: FRG; cl07460 935296015206 FRG domain; Region: FRG; cl07460 935296015207 integrase; Provisional; Region: PRK09692 935296015208 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 935296015209 active site 935296015210 Int/Topo IB signature motif; other site 935296015211 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 935296015212 AAA ATPase domain; Region: AAA_15; pfam13175 935296015213 AAA domain; Region: AAA_23; pfam13476 935296015214 Walker A/P-loop; other site 935296015215 ATP binding site [chemical binding]; other site 935296015216 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 935296015217 Walker B; other site 935296015218 D-loop; other site 935296015219 H-loop/switch region; other site 935296015220 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 935296015221 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 935296015222 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 935296015223 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 935296015224 active site 935296015225 DNA binding site [nucleotide binding] 935296015226 Int/Topo IB signature motif; other site 935296015227 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 935296015228 active site 935296015229 catalytic site [active] 935296015230 substrate binding site [chemical binding]; other site 935296015231 HD domain; Region: HD_3; cl17350 935296015232 Uncharacterized conserved protein (DUF2303); Region: DUF2303; pfam10065 935296015233 tail protein; Provisional; Region: D; PHA02561 935296015234 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 935296015235 Protein of unknown function (DUF541); Region: SIMPL; cl01077 935296015236 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 935296015237 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 935296015238 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 935296015239 major tail tube protein; Provisional; Region: FII; PHA02600 935296015240 major tail sheath protein; Provisional; Region: FI; PHA02560 935296015241 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 935296015242 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 935296015243 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 935296015244 Phage Tail Collar Domain; Region: Collar; pfam07484 935296015245 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 935296015246 baseplate assembly protein; Provisional; Region: J; PHA02568 935296015247 baseplate wedge subunit; Provisional; Region: W; PHA02516 935296015248 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 935296015249 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 935296015250 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 935296015251 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 935296015252 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 935296015253 The lysozyme from bacteriophage lambda hydrolyses the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetylglucosamine (GlcNAc), as do other lysozymes. But unlike other lysozymes, bacteriophage lambda does not produce a reducing...; Region: bacteriophage_lambda_lysozyme; cd00736 935296015254 N-acetyl-D-glucosamine binding site [chemical binding]; other site 935296015255 catalytic residue [active] 935296015256 Phage holin family 2; Region: Phage_holin_2; pfam04550 935296015257 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 935296015258 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 935296015259 terminase endonuclease subunit; Provisional; Region: M; PHA02537 935296015260 Phage major capsid protein, P2 family; Region: Phage_cap_P2; pfam05125 935296015261 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; pfam05929 935296015262 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 935296015263 Winged helix-turn helix; Region: HTH_29; pfam13551 935296015264 terminase ATPase subunit; Provisional; Region: P; PHA02535 935296015265 portal vertex protein; Provisional; Region: Q; PHA02536 935296015266 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 935296015267 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 935296015268 Dock Homology Region 2, a GEF domain, of Dedicator of Cytokinesis proteins; Region: DHR2_DOCK; cl06123 935296015269 DksA-like zinc finger domain containing protein; Region: PHA00080 935296015270 Protein of unknown function (DUF2732); Region: DUF2732; pfam10809 935296015271 Phage regulatory protein CII (CP76); Region: Phage_CP76; pfam06892 935296015272 Helix-turn-helix domain; Region: HTH_17; cl17695 935296015273 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 935296015274 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 935296015275 Bacterial PH domain; Region: bPH_3; pfam14470 935296015276 Short C-terminal domain; Region: SHOCT; pfam09851 935296015277 integrase; Provisional; Region: int; PHA02601 935296015278 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 935296015279 active site 935296015280 DNA binding site [nucleotide binding] 935296015281 Int/Topo IB signature motif; other site 935296015282 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 935296015283 Pectate lyase superfamily protein; Region: Pectate_lyase_3; cl19188 935296015284 Right handed beta helix region; Region: Beta_helix; pfam13229 935296015285 Pectate lyase superfamily protein; Region: Pectate_lyase_3; cl19188 935296015286 Right handed beta helix region; Region: Beta_helix; pfam13229 935296015287 Putative phage tail protein; Region: Phage-tail_3; pfam13550 935296015288 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 935296015289 Domain of unknown function (DUF1833); Region: DUF1833; pfam08875 935296015290 Phage-related minor tail protein [Function unknown]; Region: COG5281 935296015291 tape measure domain; Region: tape_meas_nterm; TIGR02675 935296015292 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; cl19901 935296015293 KilA-N domain; Region: KilA-N; pfam04383 935296015294 Protein of unknown function (DUF4035); Region: DUF4035; pfam13227 935296015295 Phage tail assembly chaperone; Region: Phage_TAC; pfam06222 935296015296 Immunoglobulin domain; Region: Ig_2; pfam13895 935296015297 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 935296015298 phage protein, HK97 gp10 family; Region: phge_HK97_gp10; TIGR01725 935296015299 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 935296015300 Phage capsid family; Region: Phage_capsid; pfam05065 935296015301 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 935296015302 Phage portal protein; Region: Phage_portal; pfam04860 935296015303 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 935296015304 Phage Terminase; Region: Terminase_1; cl19862 935296015305 Phage terminase, small subunit; Region: Terminase_4; pfam05119 935296015306 Protein of unknown function (DUF2560); Region: DUF2560; cl10280 935296015307 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 935296015308 Predicted chitinase [General function prediction only]; Region: COG3179 935296015309 Protein of unknown function (DUF754); Region: DUF754; pfam05449 935296015310 Protein of unknown function (DUF3927); Region: DUF3927; pfam13064 935296015311 tellurite resistance protein terB; Region: terB; cd07176 935296015312 putative metal binding site [ion binding]; other site 935296015313 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 935296015314 DNA methylase; Region: N6_N4_Mtase; pfam01555 935296015315 Antitermination protein; Region: Antiterm; pfam03589 935296015316 Antitermination protein; Region: Antiterm; pfam03589 935296015317 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 935296015318 Catalytic site [active] 935296015319 Helix-turn-helix domain; Region: HTH_36; pfam13730 935296015320 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; pfam09524 935296015321 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; pfam05869 935296015322 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 935296015323 cofactor binding site; other site 935296015324 DNA binding site [nucleotide binding] 935296015325 substrate interaction site [chemical binding]; other site 935296015326 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; cl19095 935296015327 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 935296015328 Endodeoxyribonuclease RusA; Region: RusA; cl01885 935296015329 AntA/AntB antirepressor; Region: AntA; pfam08346 935296015330 Protein of unknown function (DUF968); Region: DUF968; pfam06147 935296015331 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 935296015332 active site 935296015333 multiple promoter invertase; Provisional; Region: mpi; PRK13413 935296015334 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 935296015335 catalytic residues [active] 935296015336 catalytic nucleophile [active] 935296015337 Presynaptic Site I dimer interface [polypeptide binding]; other site 935296015338 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 935296015339 Synaptic Flat tetramer interface [polypeptide binding]; other site 935296015340 Synaptic Site I dimer interface [polypeptide binding]; other site 935296015341 DNA binding site [nucleotide binding] 935296015342 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cd00569 935296015343 DNA-binding interface [nucleotide binding]; DNA binding site 935296015344 DinI-like family; Region: DinI; pfam06183 935296015345 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 935296015346 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 935296015347 SmpB-tmRNA interface; other site 935296015348 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 935296015349 putative coenzyme Q binding site [chemical binding]; other site 935296015350 hypothetical protein; Validated; Region: PRK01777 935296015351 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 935296015352 recombination and repair protein; Provisional; Region: PRK10869 935296015353 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 935296015354 Walker A/P-loop; other site 935296015355 ATP binding site [chemical binding]; other site 935296015356 Q-loop/lid; other site 935296015357 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 935296015358 ABC transporter signature motif; other site 935296015359 Walker B; other site 935296015360 D-loop; other site 935296015361 H-loop/switch region; other site 935296015362 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 935296015363 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 935296015364 dimer interface [polypeptide binding]; other site 935296015365 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 935296015366 hypothetical protein; Provisional; Region: PRK11573 935296015367 Domain of unknown function DUF21; Region: DUF21; pfam01595 935296015368 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 935296015369 Transporter associated domain; Region: CorC_HlyC; smart01091 935296015370 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 935296015371 signal recognition particle protein; Provisional; Region: PRK10867 935296015372 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 935296015373 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 935296015374 P loop; other site 935296015375 GTP binding site [chemical binding]; other site 935296015376 Signal peptide binding domain; Region: SRP_SPB; pfam02978 935296015377 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 935296015378 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 935296015379 RimM N-terminal domain; Region: RimM; pfam01782 935296015380 PRC-barrel domain; Region: PRC; pfam05239 935296015381 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 935296015382 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 935296015383 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 935296015384 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 935296015385 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 935296015386 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 935296015387 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 935296015388 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 935296015389 ligand binding site [chemical binding]; other site 935296015390 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 935296015391 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 935296015392 metal binding site [ion binding]; metal-binding site 935296015393 active site 935296015394 I-site; other site 935296015395 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 935296015396 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 935296015397 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 935296015398 Chorismate mutase type II; Region: CM_2; cl00693 935296015399 prephenate dehydrogenase; Validated; Region: PRK08507 935296015400 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 935296015401 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 935296015402 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 935296015403 Prephenate dehydratase; Region: PDT; pfam00800 935296015404 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 935296015405 putative L-Phe binding site [chemical binding]; other site 935296015406 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 935296015407 30S subunit binding site; other site 935296015408 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 935296015409 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 935296015410 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 935296015411 RNA binding surface [nucleotide binding]; other site 935296015412 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 935296015413 active site 935296015414 hypothetical protein; Provisional; Region: PRK10723 935296015415 protein disaggregation chaperone; Provisional; Region: PRK10865 935296015416 Clp amino terminal domain; Region: Clp_N; pfam02861 935296015417 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 935296015418 Walker A motif; other site 935296015419 ATP binding site [chemical binding]; other site 935296015420 Walker B motif; other site 935296015421 arginine finger; other site 935296015422 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 935296015423 Walker A motif; other site 935296015424 ATP binding site [chemical binding]; other site 935296015425 Walker B motif; other site 935296015426 arginine finger; other site 935296015427 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 935296015428 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 935296015429 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 935296015430 putative substrate translocation pore; other site 935296015431 lipoprotein; Provisional; Region: PRK10759 935296015432 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 935296015433 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 935296015434 domain interface [polypeptide binding]; other site 935296015435 putative active site [active] 935296015436 catalytic site [active] 935296015437 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 935296015438 domain interface [polypeptide binding]; other site 935296015439 putative active site [active] 935296015440 catalytic site [active] 935296015441 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 935296015442 CoA binding domain; Region: CoA_binding_2; pfam13380 935296015443 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 935296015444 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 935296015445 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 935296015446 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 935296015447 Uncharacterized conserved protein [Function unknown]; Region: COG3148 935296015448 thioredoxin 2; Provisional; Region: PRK10996 935296015449 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 935296015450 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 935296015451 catalytic residues [active] 935296015452 putative methyltransferase; Provisional; Region: PRK10864 935296015453 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 935296015454 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 935296015455 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 935296015456 ligand binding site [chemical binding]; other site 935296015457 active site 935296015458 UGI interface [polypeptide binding]; other site 935296015459 catalytic site [active] 935296015460 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 935296015461 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 935296015462 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 935296015463 ATP binding site [chemical binding]; other site 935296015464 Mg++ binding site [ion binding]; other site 935296015465 motif III; other site 935296015466 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 935296015467 nucleotide binding region [chemical binding]; other site 935296015468 ATP-binding site [chemical binding]; other site 935296015469 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 935296015470 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 935296015471 S-adenosylmethionine binding site [chemical binding]; other site 935296015472 L-aspartate oxidase; Provisional; Region: PRK09077 935296015473 L-aspartate oxidase; Provisional; Region: PRK06175 935296015474 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 935296015475 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 935296015476 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 935296015477 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 935296015478 DNA binding residues [nucleotide binding] 935296015479 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 935296015480 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 935296015481 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 935296015482 anti-sigma E factor; Provisional; Region: rseB; PRK09455 935296015483 SoxR reducing system protein RseC; Provisional; Region: PRK10862 935296015484 GTP-binding protein LepA; Provisional; Region: PRK05433 935296015485 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 935296015486 G1 box; other site 935296015487 putative GEF interaction site [polypeptide binding]; other site 935296015488 GTP/Mg2+ binding site [chemical binding]; other site 935296015489 Switch I region; other site 935296015490 G2 box; other site 935296015491 G3 box; other site 935296015492 Switch II region; other site 935296015493 G4 box; other site 935296015494 G5 box; other site 935296015495 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 935296015496 Elongation Factor G, domain II; Region: EFG_II; pfam14492 935296015497 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 935296015498 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 935296015499 signal peptidase I; Provisional; Region: PRK10861 935296015500 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 935296015501 Catalytic site [active] 935296015502 ribonuclease III; Reviewed; Region: rnc; PRK00102 935296015503 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 935296015504 dimerization interface [polypeptide binding]; other site 935296015505 active site 935296015506 metal binding site [ion binding]; metal-binding site 935296015507 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 935296015508 dsRNA binding site [nucleotide binding]; other site 935296015509 GTPase Era; Reviewed; Region: era; PRK00089 935296015510 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 935296015511 G1 box; other site 935296015512 GTP/Mg2+ binding site [chemical binding]; other site 935296015513 Switch I region; other site 935296015514 G2 box; other site 935296015515 Switch II region; other site 935296015516 G3 box; other site 935296015517 G4 box; other site 935296015518 G5 box; other site 935296015519 KH domain; Region: KH_2; pfam07650 935296015520 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 935296015521 Recombination protein O N terminal; Region: RecO_N; pfam11967 935296015522 Recombination protein O C terminal; Region: RecO_C; pfam02565 935296015523 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 935296015524 active site 935296015525 hydrophilic channel; other site 935296015526 dimerization interface [polypeptide binding]; other site 935296015527 catalytic residues [active] 935296015528 active site lid [active] 935296015529 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 935296015530 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 935296015531 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 935296015532 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 935296015533 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 935296015534 putative active site [active] 935296015535 hypothetical protein; Provisional; Region: PRK11590 935296015536 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 935296015537 nucleoside/Zn binding site; other site 935296015538 dimer interface [polypeptide binding]; other site 935296015539 catalytic motif [active] 935296015540 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 935296015541 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 935296015542 substrate binding pocket [chemical binding]; other site 935296015543 membrane-bound complex binding site; other site 935296015544 hinge residues; other site 935296015545 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 935296015546 N-acetyl-D-glucosamine binding site [chemical binding]; other site 935296015547 catalytic residue [active] 935296015548 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 935296015549 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 935296015550 dimerization interface [polypeptide binding]; other site 935296015551 ATP binding site [chemical binding]; other site 935296015552 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 935296015553 dimerization interface [polypeptide binding]; other site 935296015554 ATP binding site [chemical binding]; other site 935296015555 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 935296015556 putative active site [active] 935296015557 catalytic triad [active] 935296015558 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 935296015559 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 935296015560 dimer interface [polypeptide binding]; other site 935296015561 phosphorylation site [posttranslational modification] 935296015562 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 935296015563 ATP binding site [chemical binding]; other site 935296015564 Mg2+ binding site [ion binding]; other site 935296015565 G-X-G motif; other site 935296015566 hypothetical protein; Provisional; Region: PRK10722 935296015567 response regulator GlrR; Provisional; Region: PRK15115 935296015568 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 935296015569 active site 935296015570 phosphorylation site [posttranslational modification] 935296015571 intermolecular recognition site; other site 935296015572 dimerization interface [polypeptide binding]; other site 935296015573 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 935296015574 Walker A motif; other site 935296015575 ATP binding site [chemical binding]; other site 935296015576 Walker B motif; other site 935296015577 arginine finger; other site 935296015578 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 935296015579 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 935296015580 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 935296015581 heme-binding site [chemical binding]; other site 935296015582 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 935296015583 FAD binding pocket [chemical binding]; other site 935296015584 FAD binding motif [chemical binding]; other site 935296015585 phosphate binding motif [ion binding]; other site 935296015586 beta-alpha-beta structure motif; other site 935296015587 NAD binding pocket [chemical binding]; other site 935296015588 Heme binding pocket [chemical binding]; other site 935296015589 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 935296015590 dimer interface [polypeptide binding]; other site 935296015591 active site 935296015592 glycine-pyridoxal phosphate binding site [chemical binding]; other site 935296015593 folate binding site [chemical binding]; other site 935296015594 Predicted membrane protein [Function unknown]; Region: COG2259 935296015595 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 935296015596 LacY proton/sugar symporter; Region: LacY_symp; pfam01306 935296015597 putative substrate translocation pore; other site 935296015598 stationary phase inducible protein CsiE; Provisional; Region: PRK11564 935296015599 PRD domain; Region: PRD; pfam00874 935296015600 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG3683 935296015601 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 935296015602 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 935296015603 active site 935296015604 dimerization interface [polypeptide binding]; other site 935296015605 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 935296015606 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 935296015607 DNA-binding transcriptional regulator IscR; Provisional; Region: PRK10857 935296015608 Rrf2 family protein; Region: rrf2_super; TIGR00738 935296015609 cysteine desulfurase; Provisional; Region: PRK14012 935296015610 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 935296015611 catalytic residue [active] 935296015612 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 935296015613 trimerization site [polypeptide binding]; other site 935296015614 active site 935296015615 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 935296015616 co-chaperone HscB; Provisional; Region: hscB; PRK05014 935296015617 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 935296015618 HSP70 interaction site [polypeptide binding]; other site 935296015619 HSCB C-terminal oligomerization domain; Region: HSCB_C; pfam07743 935296015620 chaperone protein HscA; Provisional; Region: hscA; PRK05183 935296015621 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 935296015622 nucleotide binding site [chemical binding]; other site 935296015623 putative NEF/HSP70 interaction site [polypeptide binding]; other site 935296015624 SBD interface [polypeptide binding]; other site 935296015625 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 935296015626 catalytic loop [active] 935296015627 iron binding site [ion binding]; other site 935296015628 hypothetical protein; Provisional; Region: PRK10721 935296015629 aminopeptidase B; Provisional; Region: PRK05015 935296015630 Peptidase; Region: DUF3663; pfam12404 935296015631 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 935296015632 interface (dimer of trimers) [polypeptide binding]; other site 935296015633 Substrate-binding/catalytic site; other site 935296015634 Zn-binding sites [ion binding]; other site 935296015635 SseB protein N-terminal domain; Region: SseB; pfam07179 935296015636 enhanced serine sensitivity protein SseB; Provisional; Region: PRK11611 935296015637 SseB protein C-terminal domain; Region: SseB_C; pfam14581 935296015638 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 935296015639 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 935296015640 active site residue [active] 935296015641 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 935296015642 active site residue [active] 935296015643 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 935296015644 MG2 domain; Region: A2M_N; pfam01835 935296015645 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 935296015646 Alpha-2-macroglobulin family; Region: A2M; pfam00207 935296015647 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 935296015648 surface patch; other site 935296015649 thioester region; other site 935296015650 specificity defining residues; other site 935296015651 penicillin-binding protein 1C; Provisional; Region: PRK11240 935296015652 Transglycosylase; Region: Transgly; pfam00912 935296015653 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 935296015654 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 935296015655 Nucleoside diphosphate kinase; Region: NDK; pfam00334 935296015656 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 935296015657 active site 935296015658 multimer interface [polypeptide binding]; other site 935296015659 23S rRNA m2A2503 methyltransferase; Region: TIGR00048 935296015660 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 935296015661 FeS/SAM binding site; other site 935296015662 cytoskeletal protein RodZ; Provisional; Region: PRK10856 935296015663 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 935296015664 non-specific DNA binding site [nucleotide binding]; other site 935296015665 salt bridge; other site 935296015666 sequence-specific DNA binding site [nucleotide binding]; other site 935296015667 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 935296015668 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 935296015669 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 935296015670 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 935296015671 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 935296015672 dimer interface [polypeptide binding]; other site 935296015673 motif 1; other site 935296015674 active site 935296015675 motif 2; other site 935296015676 motif 3; other site 935296015677 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 935296015678 anticodon binding site; other site 935296015679 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 935296015680 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 935296015681 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 935296015682 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 935296015683 Trp docking motif [polypeptide binding]; other site 935296015684 GTP-binding protein Der; Reviewed; Region: PRK00093 935296015685 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 935296015686 G1 box; other site 935296015687 GTP/Mg2+ binding site [chemical binding]; other site 935296015688 Switch I region; other site 935296015689 G2 box; other site 935296015690 Switch II region; other site 935296015691 G3 box; other site 935296015692 G4 box; other site 935296015693 G5 box; other site 935296015694 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 935296015695 G1 box; other site 935296015696 GTP/Mg2+ binding site [chemical binding]; other site 935296015697 Switch I region; other site 935296015698 G2 box; other site 935296015699 G3 box; other site 935296015700 Switch II region; other site 935296015701 G4 box; other site 935296015702 G5 box; other site 935296015703 KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; Region: KH_dom-like; pfam14714 935296015704 zinc-ribbons; Region: zinc-ribbons_6; pfam07191 935296015705 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 935296015706 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 935296015707 active site 935296015708 Zn binding site [ion binding]; other site 935296015709 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 935296015710 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 935296015711 generic binding surface II; other site 935296015712 generic binding surface I; other site 935296015713 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 935296015714 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 935296015715 active site 935296015716 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 935296015717 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 935296015718 AMP/PPi binding site [chemical binding]; other site 935296015719 candidate oxyanion hole; other site 935296015720 potential glutamine specificity residues [chemical binding]; other site 935296015721 GMP synthase, PP-ATPase domain/subunit [Nucleotide transport and metabolism]; Region: GuaA; COG0519 935296015722 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 935296015723 ATP Binding subdomain [chemical binding]; other site 935296015724 Ligand Binding sites [chemical binding]; other site 935296015725 Dimerization subdomain; other site 935296015726 integrase; Provisional; Region: PRK09692 935296015727 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 935296015728 active site 935296015729 Int/Topo IB signature motif; other site 935296015730 MT-A70; Region: MT-A70; cl01947 935296015731 PerC transcriptional activator; Region: PerC; pfam06069 935296015732 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 935296015733 RecT family; Region: RecT; pfam03837 935296015734 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 935296015735 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 935296015736 non-specific DNA binding site [nucleotide binding]; other site 935296015737 salt bridge; other site 935296015738 sequence-specific DNA binding site [nucleotide binding]; other site 935296015739 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 935296015740 non-specific DNA binding site [nucleotide binding]; other site 935296015741 salt bridge; other site 935296015742 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 935296015743 sequence-specific DNA binding site [nucleotide binding]; other site 935296015744 primosomal protein DnaI; Provisional; Region: PRK02854 935296015745 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 935296015746 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 935296015747 Protein of unknown function (DUF550); Region: DUF550; pfam04447 935296015748 Protein of unknown function (DUF551); Region: DUF551; pfam04448 935296015749 Terminase small subunit; Region: Terminase_2; pfam03592 935296015750 hypothetical protein; Region: PHA00670 935296015751 putative protease; Region: PHA00666 935296015752 major capsid protein; Region: PHA00665 935296015753 hypothetical protein; Region: PHA00664 935296015754 hypothetical protein; Region: PHA00669 935296015755 hypothetical protein; Region: PHA00662 935296015756 hypothetical protein; Region: PHA00661 935296015757 hypothetical protein; Region: PHA01733 935296015758 hypothetical protein; Region: PHA00660 935296015759 putative lysin; Region: PHA00658 935296015760 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 935296015761 N-acetyl-D-glucosamine binding site [chemical binding]; other site 935296015762 catalytic residue [active] 935296015763 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]; Region: COG4372 935296015764 structural protein; Region: PHA01972 935296015765 BRO family, N-terminal domain; Region: Bro-N; smart01040 935296015766 hypothetical protein; Provisional; Region: PHA02515 935296015767 Predicted chitinase [General function prediction only]; Region: COG3179 935296015768 catalytic residue [active] 935296015769 Protein of unknown function (DUF2514); Region: DUF2514; pfam10721 935296015770 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 935296015771 Major Facilitator Superfamily; Region: MFS_1; pfam07690 935296015772 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 935296015773 putative substrate translocation pore; other site 935296015774 Transcriptional regulator [Transcription]; Region: LysR; COG0583 935296015775 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 935296015776 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 935296015777 dimerization interface [polypeptide binding]; other site 935296015778 Protein of unknown function (DUF2633); Region: DUF2633; pfam11119 935296015779 MASE1; Region: MASE1; cl17823 935296015780 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 935296015781 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 935296015782 exopolyphosphatase; Provisional; Region: PRK10854 935296015783 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 935296015784 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 935296015785 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 935296015786 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 935296015787 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 935296015788 putative active site [active] 935296015789 catalytic site [active] 935296015790 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 935296015791 domain interface [polypeptide binding]; other site 935296015792 active site 935296015793 catalytic site [active] 935296015794 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 935296015795 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 935296015796 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 935296015797 putative substrate translocation pore; other site 935296015798 Pectate lyase superfamily protein; Region: Pectate_lyase_3; cl19188 935296015799 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 935296015800 active site 935296015801 substrate binding site [chemical binding]; other site 935296015802 cosubstrate binding site; other site 935296015803 catalytic site [active] 935296015804 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 935296015805 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 935296015806 dimerization interface [polypeptide binding]; other site 935296015807 putative ATP binding site [chemical binding]; other site 935296015808 6-phospho-beta-glucosidase; Reviewed; Region: celA; PRK09589 935296015809 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 935296015810 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 935296015811 active site 935296015812 uracil transporter; Provisional; Region: PRK10720 935296015813 uracil-xanthine permease; Region: ncs2; TIGR00801 935296015814 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 935296015815 Protein of unknown function, DUF480; Region: DUF480; cl01209 935296015816 Rop protein; Region: Rop; pfam01815 935296015817 Replication-relaxation; Region: Replic_Relax; pfam13814 935296015818 Domain of unknown function DUF87; Region: DUF87; cl19135 935296015819 AAA-like domain; Region: AAA_10; pfam12846 935296015820 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 935296015821 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 935296015822 Lysis protein; Region: Lysis_col; pfam02402 935296015823 Cloacin immunity protein; Region: Cloacin_immun; pfam03513 935296015824 Colicin-like bacteriocin tRNase domain; Region: Cloacin; pfam03515 935296015825 Coiled-coil receptor-binding R-domain of colicin E2; Region: E2R135; pfam11570 935296015826 Cytotoxic; Region: Cytotoxic; pfam09000