-- dump date 20140619_165731 -- class Genbank::misc_feature -- table misc_feature_note -- id note 279238000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 279238000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 279238000003 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 279238000004 Walker A motif; other site 279238000005 ATP binding site [chemical binding]; other site 279238000006 Walker B motif; other site 279238000007 arginine finger; other site 279238000008 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 279238000009 DnaA box-binding interface [nucleotide binding]; other site 279238000010 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 279238000011 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 279238000012 ATP binding site [chemical binding]; other site 279238000013 substrate interface [chemical binding]; other site 279238000014 NAD-dependent deacetylase; Provisional; Region: PRK00481 279238000015 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 279238000016 NAD+ binding site [chemical binding]; other site 279238000017 substrate binding site [chemical binding]; other site 279238000018 Zn binding site [ion binding]; other site 279238000019 dihydrodipicolinate reductase; Provisional; Region: PRK00048 279238000020 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 279238000021 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 279238000022 Peptidase family M48; Region: Peptidase_M48; cl12018 279238000023 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 279238000024 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 279238000025 minor groove reading motif; other site 279238000026 helix-hairpin-helix signature motif; other site 279238000027 substrate binding pocket [chemical binding]; other site 279238000028 active site 279238000029 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 279238000030 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 279238000031 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 279238000032 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 279238000033 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 279238000034 Tetramer interface [polypeptide binding]; other site 279238000035 active site 279238000036 FMN-binding site [chemical binding]; other site 279238000037 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 279238000038 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 279238000039 ArsC family; Region: ArsC; pfam03960 279238000040 putative catalytic residues [active] 279238000041 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 279238000042 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 279238000043 AAA domain; Region: AAA_28; pfam13521 279238000044 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 279238000045 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 279238000046 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 279238000047 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 279238000048 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 279238000049 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 279238000050 homoserine dehydrogenase; Provisional; Region: PRK06349 279238000051 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 279238000052 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 279238000053 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 279238000054 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 279238000055 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 279238000056 putative active site [active] 279238000057 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 279238000058 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 279238000059 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 279238000060 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 279238000061 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 279238000062 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 279238000063 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 279238000064 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 279238000065 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 279238000066 DNA binding site [nucleotide binding] 279238000067 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 279238000068 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 279238000069 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 279238000070 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 279238000071 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 279238000072 RPB11 interaction site [polypeptide binding]; other site 279238000073 RPB12 interaction site [polypeptide binding]; other site 279238000074 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 279238000075 RPB3 interaction site [polypeptide binding]; other site 279238000076 RPB1 interaction site [polypeptide binding]; other site 279238000077 RPB11 interaction site [polypeptide binding]; other site 279238000078 RPB10 interaction site [polypeptide binding]; other site 279238000079 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 279238000080 non-specific DNA binding site [nucleotide binding]; other site 279238000081 salt bridge; other site 279238000082 sequence-specific DNA binding site [nucleotide binding]; other site 279238000083 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 279238000084 23S rRNA interface [nucleotide binding]; other site 279238000085 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 279238000086 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 279238000087 L11 interface [polypeptide binding]; other site 279238000088 putative EF-Tu interaction site [polypeptide binding]; other site 279238000089 putative EF-G interaction site [polypeptide binding]; other site 279238000090 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 279238000091 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 279238000092 dimerization interface [polypeptide binding]; other site 279238000093 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 279238000094 dimer interface [polypeptide binding]; other site 279238000095 phosphorylation site [posttranslational modification] 279238000096 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 279238000097 ATP binding site [chemical binding]; other site 279238000098 Mg2+ binding site [ion binding]; other site 279238000099 G-X-G motif; other site 279238000100 Cytochrome c; Region: Cytochrom_C; cl11414 279238000101 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 279238000102 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 279238000103 cation binding site [ion binding]; other site 279238000104 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 279238000105 oligomerisation interface [polypeptide binding]; other site 279238000106 mobile loop; other site 279238000107 roof hairpin; other site 279238000108 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 279238000109 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 279238000110 ring oligomerisation interface [polypeptide binding]; other site 279238000111 ATP/Mg binding site [chemical binding]; other site 279238000112 stacking interactions; other site 279238000113 hinge regions; other site 279238000114 PAS domain S-box; Region: sensory_box; TIGR00229 279238000115 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 279238000116 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 279238000117 ATP binding site [chemical binding]; other site 279238000118 Mg2+ binding site [ion binding]; other site 279238000119 G-X-G motif; other site 279238000120 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 279238000121 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 279238000122 active site 279238000123 phosphorylation site [posttranslational modification] 279238000124 intermolecular recognition site; other site 279238000125 dimerization interface [polypeptide binding]; other site 279238000126 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 279238000127 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 279238000128 Protein of unknown function (DUF445); Region: DUF445; pfam04286 279238000129 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 279238000130 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 279238000131 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 279238000132 HlyD family secretion protein; Region: HlyD_3; pfam13437 279238000133 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 279238000134 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 279238000135 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 279238000136 Ligand Binding Site [chemical binding]; other site 279238000137 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 279238000138 Beta-lactamase; Region: Beta-lactamase; pfam00144 279238000139 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 279238000140 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 279238000141 Cation efflux family; Region: Cation_efflux; cl00316 279238000142 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 279238000143 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 279238000144 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 279238000145 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 279238000146 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 279238000147 HSP70 interaction site [polypeptide binding]; other site 279238000148 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 279238000149 substrate binding site [polypeptide binding]; other site 279238000150 dimer interface [polypeptide binding]; other site 279238000151 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 279238000152 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 279238000153 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 279238000154 NAD binding site [chemical binding]; other site 279238000155 homotetramer interface [polypeptide binding]; other site 279238000156 homodimer interface [polypeptide binding]; other site 279238000157 substrate binding site [chemical binding]; other site 279238000158 active site 279238000159 Ubiquinone biosynthesis protein COQ7; Region: COQ7; pfam03232 279238000160 dinuclear metal binding motif [ion binding]; other site 279238000161 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 279238000162 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 279238000163 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 279238000164 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 279238000165 protein binding site [polypeptide binding]; other site 279238000166 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 279238000167 Catalytic dyad [active] 279238000168 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 279238000169 Peptidase family M23; Region: Peptidase_M23; pfam01551 279238000170 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 279238000171 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 279238000172 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 279238000173 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 279238000174 active site 279238000175 (T/H)XGH motif; other site 279238000176 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 279238000177 putative catalytic cysteine [active] 279238000178 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 279238000179 Peptidase family M23; Region: Peptidase_M23; pfam01551 279238000180 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 279238000181 Protein of unknown function (DUF1013); Region: DUF1013; pfam06242 279238000182 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 279238000183 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 279238000184 NAD(P) binding site [chemical binding]; other site 279238000185 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 279238000186 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 279238000187 Walker A motif; other site 279238000188 ATP binding site [chemical binding]; other site 279238000189 Walker B motif; other site 279238000190 arginine finger; other site 279238000191 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 279238000192 Walker A motif; other site 279238000193 ATP binding site [chemical binding]; other site 279238000194 Walker B motif; other site 279238000195 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 279238000196 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 279238000197 ATP-dependent DNA ligase; Validated; Region: PRK09247 279238000198 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 279238000199 active site 279238000200 DNA binding site [nucleotide binding] 279238000201 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 279238000202 DNA binding site [nucleotide binding] 279238000203 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 279238000204 apolar tunnel; other site 279238000205 heme binding site [chemical binding]; other site 279238000206 dimerization interface [polypeptide binding]; other site 279238000207 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 279238000208 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 279238000209 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 279238000210 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 279238000211 trimer interface [polypeptide binding]; other site 279238000212 putative metal binding site [ion binding]; other site 279238000213 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 279238000214 dimer interface [polypeptide binding]; other site 279238000215 allosteric magnesium binding site [ion binding]; other site 279238000216 active site 279238000217 aspartate-rich active site metal binding site; other site 279238000218 Schiff base residues; other site 279238000219 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 279238000220 Peptidase family M23; Region: Peptidase_M23; pfam01551 279238000221 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 279238000222 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 279238000223 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 279238000224 Walker A motif; other site 279238000225 ATP binding site [chemical binding]; other site 279238000226 Walker B motif; other site 279238000227 arginine finger; other site 279238000228 Peptidase family M41; Region: Peptidase_M41; pfam01434 279238000229 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 279238000230 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 279238000231 Ligand Binding Site [chemical binding]; other site 279238000232 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 279238000233 Tetratricopeptide repeat; Region: TPR_6; pfam13174 279238000234 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 279238000235 non-specific DNA binding site [nucleotide binding]; other site 279238000236 salt bridge; other site 279238000237 sequence-specific DNA binding site [nucleotide binding]; other site 279238000238 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 279238000239 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 279238000240 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 279238000241 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 279238000242 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 279238000243 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 279238000244 Protein of unknown function (DUF465); Region: DUF465; cl01070 279238000245 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 279238000246 Protein of unknown function (DUF1465); Region: DUF1465; pfam07323 279238000247 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 279238000248 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 279238000249 N- and C-terminal domain interface [polypeptide binding]; other site 279238000250 active site 279238000251 MgATP binding site [chemical binding]; other site 279238000252 catalytic site [active] 279238000253 metal binding site [ion binding]; metal-binding site 279238000254 glycerol binding site [chemical binding]; other site 279238000255 homotetramer interface [polypeptide binding]; other site 279238000256 homodimer interface [polypeptide binding]; other site 279238000257 FBP binding site [chemical binding]; other site 279238000258 protein IIAGlc interface [polypeptide binding]; other site 279238000259 glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK13369 279238000260 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 279238000261 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 279238000262 quinolinate synthetase; Provisional; Region: PRK09375 279238000263 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 279238000264 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 279238000265 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 279238000266 FMN binding site [chemical binding]; other site 279238000267 active site 279238000268 substrate binding site [chemical binding]; other site 279238000269 catalytic residue [active] 279238000270 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 279238000271 lipoate-protein ligase B; Provisional; Region: PRK14341 279238000272 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 279238000273 S-adenosylmethionine binding site [chemical binding]; other site 279238000274 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238000275 Major Facilitator Superfamily; Region: MFS_1; pfam07690 279238000276 putative substrate translocation pore; other site 279238000277 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238000278 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 279238000279 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 279238000280 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 279238000281 Myo-inositol-1-phosphate synthase [Lipid metabolism]; Region: INO1; COG1260 279238000282 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 279238000283 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 279238000284 active site 279238000285 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 279238000286 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 279238000287 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 279238000288 substrate binding site [chemical binding]; other site 279238000289 hexamer interface [polypeptide binding]; other site 279238000290 metal binding site [ion binding]; metal-binding site 279238000291 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 279238000292 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 279238000293 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 279238000294 purine monophosphate binding site [chemical binding]; other site 279238000295 dimer interface [polypeptide binding]; other site 279238000296 putative catalytic residues [active] 279238000297 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 279238000298 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 279238000299 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 279238000300 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 279238000301 Cl- selectivity filter; other site 279238000302 Cl- binding residues [ion binding]; other site 279238000303 pore gating glutamate residue; other site 279238000304 dimer interface [polypeptide binding]; other site 279238000305 FOG: CBS domain [General function prediction only]; Region: COG0517 279238000306 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the metalloprotease peptidase M50. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide...; Region: CBS_pair_M50_like; cd04801 279238000307 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 279238000308 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 279238000309 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 279238000310 CoenzymeA binding site [chemical binding]; other site 279238000311 subunit interaction site [polypeptide binding]; other site 279238000312 PHB binding site; other site 279238000313 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 279238000314 active site 279238000315 phosphorylation site [posttranslational modification] 279238000316 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 279238000317 30S subunit binding site; other site 279238000318 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 279238000319 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 279238000320 active site 279238000321 catalytic site [active] 279238000322 substrate binding site [chemical binding]; other site 279238000323 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 279238000324 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 279238000325 CoA-binding site [chemical binding]; other site 279238000326 ATP-binding [chemical binding]; other site 279238000327 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 279238000328 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 279238000329 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 279238000330 shikimate binding site; other site 279238000331 NAD(P) binding site [chemical binding]; other site 279238000332 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 279238000333 active site 279238000334 dimer interface [polypeptide binding]; other site 279238000335 PEP synthetase regulatory protein; Provisional; Region: PRK05339 279238000336 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 279238000337 substrate binding site [chemical binding]; other site 279238000338 active site 279238000339 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 279238000340 transcription termination factor Rho; Provisional; Region: rho; PRK09376 279238000341 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 279238000342 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 279238000343 RNA binding site [nucleotide binding]; other site 279238000344 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 279238000345 multimer interface [polypeptide binding]; other site 279238000346 Walker A motif; other site 279238000347 ATP binding site [chemical binding]; other site 279238000348 Walker B motif; other site 279238000349 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 279238000350 ATP binding site [chemical binding]; other site 279238000351 putative Mg++ binding site [ion binding]; other site 279238000352 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 279238000353 nucleotide binding region [chemical binding]; other site 279238000354 ATP-binding site [chemical binding]; other site 279238000355 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 279238000356 RNA binding surface [nucleotide binding]; other site 279238000357 Ferredoxin [Energy production and conversion]; Region: COG1146 279238000358 4Fe-4S binding domain; Region: Fer4; cl02805 279238000359 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 279238000360 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 279238000361 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 279238000362 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 279238000363 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 279238000364 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 279238000365 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 279238000366 active site 279238000367 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 279238000368 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 279238000369 Protein of unknown function (DUF815); Region: DUF815; pfam05673 279238000370 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 279238000371 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 279238000372 GAF domain; Region: GAF_2; pfam13185 279238000373 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 279238000374 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 279238000375 active site 279238000376 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 279238000377 ParB-like nuclease domain; Region: ParBc; pfam02195 279238000378 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 279238000379 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 279238000380 Magnesium ion binding site [ion binding]; other site 279238000381 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 279238000382 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 279238000383 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 279238000384 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 279238000385 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 279238000386 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 279238000387 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 279238000388 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 279238000389 G1 box; other site 279238000390 GTP/Mg2+ binding site [chemical binding]; other site 279238000391 G2 box; other site 279238000392 Switch I region; other site 279238000393 G3 box; other site 279238000394 Switch II region; other site 279238000395 G4 box; other site 279238000396 G5 box; other site 279238000397 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 279238000398 Dienelactone hydrolase family; Region: DLH; pfam01738 279238000399 SnoaL-like domain; Region: SnoaL_2; pfam12680 279238000400 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 279238000401 replicative DNA helicase; Provisional; Region: PRK09165 279238000402 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 279238000403 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 279238000404 Walker A motif; other site 279238000405 ATP binding site [chemical binding]; other site 279238000406 Walker B motif; other site 279238000407 DNA binding loops [nucleotide binding] 279238000408 hypothetical protein; Provisional; Region: PRK02853 279238000409 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cd00599 279238000410 active site 279238000411 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 279238000412 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 279238000413 active site 279238000414 catalytic motif [active] 279238000415 Zn binding site [ion binding]; other site 279238000416 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 279238000417 trimer interface [polypeptide binding]; other site 279238000418 active site 279238000419 Uncharacterized conserved protein [Function unknown]; Region: COG3268 279238000420 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238000421 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 279238000422 heme-binding site [chemical binding]; other site 279238000423 Transcriptional regulator; Region: Rrf2; cl17282 279238000424 Rrf2 family protein; Region: rrf2_super; TIGR00738 279238000425 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 279238000426 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 279238000427 substrate binding site [chemical binding]; other site 279238000428 ATP binding site [chemical binding]; other site 279238000429 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 279238000430 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 279238000431 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 279238000432 active site 279238000433 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_10; cd04623 279238000434 FOG: CBS domain [General function prediction only]; Region: COG0517 279238000435 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 279238000436 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 279238000437 putative catalytic site [active] 279238000438 putative phosphate binding site [ion binding]; other site 279238000439 active site 279238000440 metal binding site A [ion binding]; metal-binding site 279238000441 DNA binding site [nucleotide binding] 279238000442 putative AP binding site [nucleotide binding]; other site 279238000443 putative metal binding site B [ion binding]; other site 279238000444 methionine sulfoxide reductase A; Provisional; Region: PRK14054 279238000445 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 279238000446 metal binding site 2 [ion binding]; metal-binding site 279238000447 putative DNA binding helix; other site 279238000448 metal binding site 1 [ion binding]; metal-binding site 279238000449 dimer interface [polypeptide binding]; other site 279238000450 structural Zn2+ binding site [ion binding]; other site 279238000451 metabolite-proton symporter; Region: 2A0106; TIGR00883 279238000452 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238000453 putative substrate translocation pore; other site 279238000454 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 279238000455 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 279238000456 TPP-binding site; other site 279238000457 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 279238000458 PYR/PP interface [polypeptide binding]; other site 279238000459 dimer interface [polypeptide binding]; other site 279238000460 TPP binding site [chemical binding]; other site 279238000461 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 279238000462 NnrU protein; Region: NnrU; pfam07298 279238000463 POT family; Region: PTR2; cl17359 279238000464 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238000465 POT family; Region: PTR2; cl17359 279238000466 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 279238000467 DNA-binding site [nucleotide binding]; DNA binding site 279238000468 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 279238000469 IHF dimer interface [polypeptide binding]; other site 279238000470 IHF - DNA interface [nucleotide binding]; other site 279238000471 PilZ domain; Region: PilZ; pfam07238 279238000472 PilZ domain; Region: PilZ; pfam07238 279238000473 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 279238000474 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 279238000475 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 279238000476 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 279238000477 Peptidase family M23; Region: Peptidase_M23; pfam01551 279238000478 Uncharacterized protein conserved in bacteria (DUF2093); Region: DUF2093; pfam09866 279238000479 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 279238000480 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 279238000481 generic binding surface II; other site 279238000482 generic binding surface I; other site 279238000483 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 279238000484 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 279238000485 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 279238000486 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 279238000487 Isochorismatase family; Region: Isochorismatase; pfam00857 279238000488 N-carbamoylsarcosine amidohydrolase (CSHase) hydrolyzes N-carbamoylsarcosine to sarcosine, carbon dioxide and ammonia. CSHase is involved in one of the two alternative pathways for creatinine degradation to glycine in microorganisms.This...; Region: CSHase; cd01015 279238000489 catalytic triad [active] 279238000490 substrate binding site [chemical binding]; other site 279238000491 domain interfaces; other site 279238000492 conserved cis-peptide bond; other site 279238000493 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 279238000494 CoA-transferase family III; Region: CoA_transf_3; pfam02515 279238000495 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 279238000496 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 279238000497 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 279238000498 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 279238000499 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 279238000500 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 279238000501 active site 279238000502 catalytic residues [active] 279238000503 metal binding site [ion binding]; metal-binding site 279238000504 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238000505 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 279238000506 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 279238000507 Transcriptional regulators [Transcription]; Region: FadR; COG2186 279238000508 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 279238000509 DNA-binding site [nucleotide binding]; DNA binding site 279238000510 FCD domain; Region: FCD; pfam07729 279238000511 Hemerythrin-like domain; Region: Hr-like; cd12108 279238000512 Fe binding site [ion binding]; other site 279238000513 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 279238000514 catalytic core [active] 279238000515 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 279238000516 putative substrate binding site [chemical binding]; other site 279238000517 putative ATP binding site [chemical binding]; other site 279238000518 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 279238000519 dimer interface [polypeptide binding]; other site 279238000520 [2Fe-2S] cluster binding site [ion binding]; other site 279238000521 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 279238000522 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 279238000523 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 279238000524 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 279238000525 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 279238000526 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 279238000527 Fumarase C-terminus; Region: Fumerase_C; pfam05683 279238000528 Histidine kinase; Region: His_kinase; pfam06580 279238000529 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 279238000530 ATP binding site [chemical binding]; other site 279238000531 Mg2+ binding site [ion binding]; other site 279238000532 G-X-G motif; other site 279238000533 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 279238000534 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 279238000535 active site 279238000536 phosphorylation site [posttranslational modification] 279238000537 intermolecular recognition site; other site 279238000538 dimerization interface [polypeptide binding]; other site 279238000539 LytTr DNA-binding domain; Region: LytTR; smart00850 279238000540 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 279238000541 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 279238000542 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 279238000543 acyl-activating enzyme (AAE) consensus motif; other site 279238000544 putative AMP binding site [chemical binding]; other site 279238000545 putative active site [active] 279238000546 putative CoA binding site [chemical binding]; other site 279238000547 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 279238000548 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 279238000549 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 279238000550 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 279238000551 quinone interaction residues [chemical binding]; other site 279238000552 active site 279238000553 catalytic residues [active] 279238000554 FMN binding site [chemical binding]; other site 279238000555 substrate binding site [chemical binding]; other site 279238000556 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 279238000557 Transcriptional regulator; Region: Rrf2; pfam02082 279238000558 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 279238000559 putative ABC transporter; Region: ycf24; CHL00085 279238000560 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 279238000561 putative active site [active] 279238000562 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 279238000563 FeS assembly ATPase SufC; Region: sufC; TIGR01978 279238000564 Walker A/P-loop; other site 279238000565 ATP binding site [chemical binding]; other site 279238000566 Q-loop/lid; other site 279238000567 ABC transporter signature motif; other site 279238000568 Walker B; other site 279238000569 D-loop; other site 279238000570 H-loop/switch region; other site 279238000571 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 279238000572 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 279238000573 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 279238000574 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 279238000575 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 279238000576 catalytic residue [active] 279238000577 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 279238000578 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 279238000579 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 279238000580 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 279238000581 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 279238000582 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 279238000583 active site 279238000584 dimer interface [polypeptide binding]; other site 279238000585 motif 1; other site 279238000586 motif 2; other site 279238000587 motif 3; other site 279238000588 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 279238000589 anticodon binding site; other site 279238000590 hypothetical protein; Provisional; Region: PRK06194 279238000591 classical (c) SDRs; Region: SDR_c; cd05233 279238000592 NAD(P) binding site [chemical binding]; other site 279238000593 active site 279238000594 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 279238000595 non-specific DNA binding site [nucleotide binding]; other site 279238000596 salt bridge; other site 279238000597 sequence-specific DNA binding site [nucleotide binding]; other site 279238000598 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 279238000599 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 279238000600 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 279238000601 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 279238000602 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 279238000603 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 279238000604 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 279238000605 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 279238000606 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 279238000607 dimer interface [polypeptide binding]; other site 279238000608 conserved gate region; other site 279238000609 putative PBP binding loops; other site 279238000610 ABC-ATPase subunit interface; other site 279238000611 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 279238000612 Walker A/P-loop; other site 279238000613 ATP binding site [chemical binding]; other site 279238000614 ABC transporter; Region: ABC_tran; pfam00005 279238000615 Q-loop/lid; other site 279238000616 ABC transporter signature motif; other site 279238000617 Walker B; other site 279238000618 D-loop; other site 279238000619 H-loop/switch region; other site 279238000620 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 279238000621 Beta-lactamase; Region: Beta-lactamase; pfam00144 279238000622 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 279238000623 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 279238000624 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 279238000625 epoxyqueuosine reductase; Region: TIGR00276 279238000626 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 279238000627 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 279238000628 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 279238000629 Walker A/P-loop; other site 279238000630 ATP binding site [chemical binding]; other site 279238000631 Q-loop/lid; other site 279238000632 ABC transporter signature motif; other site 279238000633 Walker B; other site 279238000634 D-loop; other site 279238000635 H-loop/switch region; other site 279238000636 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 279238000637 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 279238000638 Cytochrome P450; Region: p450; cl12078 279238000639 methionine sulfoxide reductase B; Provisional; Region: PRK00222 279238000640 SelR domain; Region: SelR; pfam01641 279238000641 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 279238000642 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 279238000643 nucleoside/Zn binding site; other site 279238000644 dimer interface [polypeptide binding]; other site 279238000645 catalytic motif [active] 279238000646 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 279238000647 B1 nucleotide binding pocket [chemical binding]; other site 279238000648 B2 nucleotide binding pocket [chemical binding]; other site 279238000649 CAS motifs; other site 279238000650 active site 279238000651 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 279238000652 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 279238000653 dimerization interface [polypeptide binding]; other site 279238000654 active site 279238000655 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 279238000656 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 279238000657 active site 279238000658 phosphorylation site [posttranslational modification] 279238000659 intermolecular recognition site; other site 279238000660 dimerization interface [polypeptide binding]; other site 279238000661 LytTr DNA-binding domain; Region: LytTR; smart00850 279238000662 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 279238000663 Histidine kinase; Region: His_kinase; pfam06580 279238000664 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 279238000665 ATP binding site [chemical binding]; other site 279238000666 Mg2+ binding site [ion binding]; other site 279238000667 G-X-G motif; other site 279238000668 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 279238000669 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 279238000670 catalytic residues [active] 279238000671 Peptidase family M48; Region: Peptidase_M48; cl12018 279238000672 TPR repeat; Region: TPR_11; pfam13414 279238000673 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 279238000674 TPR motif; other site 279238000675 binding surface 279238000676 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 279238000677 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 279238000678 substrate binding pocket [chemical binding]; other site 279238000679 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 279238000680 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238000681 H+ Antiporter protein; Region: 2A0121; TIGR00900 279238000682 putative substrate translocation pore; other site 279238000683 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 279238000684 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 279238000685 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 279238000686 helicase 45; Provisional; Region: PTZ00424 279238000687 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 279238000688 ATP binding site [chemical binding]; other site 279238000689 Mg++ binding site [ion binding]; other site 279238000690 motif III; other site 279238000691 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 279238000692 nucleotide binding region [chemical binding]; other site 279238000693 ATP-binding site [chemical binding]; other site 279238000694 glutamate carboxypeptidase; Reviewed; Region: PRK06133 279238000695 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 279238000696 metal binding site [ion binding]; metal-binding site 279238000697 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 279238000698 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 279238000699 Predicted membrane protein [Function unknown]; Region: COG2119 279238000700 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 279238000701 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 279238000702 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 279238000703 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 279238000704 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 279238000705 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 279238000706 Walker A/P-loop; other site 279238000707 ATP binding site [chemical binding]; other site 279238000708 Q-loop/lid; other site 279238000709 ABC transporter signature motif; other site 279238000710 Walker B; other site 279238000711 D-loop; other site 279238000712 H-loop/switch region; other site 279238000713 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 279238000714 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 279238000715 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 279238000716 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 279238000717 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 279238000718 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 279238000719 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 279238000720 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; cl00321 279238000721 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 279238000722 catalytic residue [active] 279238000723 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238000724 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238000725 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238000726 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 279238000727 N-terminal plug; other site 279238000728 ligand-binding site [chemical binding]; other site 279238000729 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 279238000730 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 279238000731 short chain dehydrogenase; Provisional; Region: PRK12828 279238000732 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 279238000733 NADP binding site [chemical binding]; other site 279238000734 active site 279238000735 steroid binding site; other site 279238000736 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 279238000737 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 279238000738 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 279238000739 active site 279238000740 Int/Topo IB signature motif; other site 279238000741 DNA binding site [nucleotide binding] 279238000742 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 279238000743 DNA binding site [nucleotide binding] 279238000744 active site 279238000745 Int/Topo IB signature motif; other site 279238000746 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 279238000747 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 279238000748 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 279238000749 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 279238000750 Recombinase; Region: Recombinase; pfam07508 279238000751 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 279238000752 active site 279238000753 catalytic residues [active] 279238000754 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 279238000755 Protein of unknown function DUF262; Region: DUF262; pfam03235 279238000756 Uncharacterized conserved protein [Function unknown]; Region: COG1479 279238000757 Protein of unknown function DUF262; Region: DUF262; pfam03235 279238000758 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 279238000759 Methyltransferase domain; Region: Methyltransf_26; pfam13659 279238000760 hypothetical protein; Region: PHA01782 279238000761 DEAD-like helicases superfamily; Region: DEXDc; smart00487 279238000762 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 279238000763 ATP binding site [chemical binding]; other site 279238000764 putative Mg++ binding site [ion binding]; other site 279238000765 Pseudomurein-binding repeat; Region: PMBR; pfam09373 279238000766 T5orf172 domain; Region: T5orf172; pfam10544 279238000767 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 279238000768 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 279238000769 catalytic residues [active] 279238000770 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 279238000771 binding surface 279238000772 TPR motif; other site 279238000773 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 279238000774 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 279238000775 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 279238000776 dimer interface [polypeptide binding]; other site 279238000777 putative radical transfer pathway; other site 279238000778 diiron center [ion binding]; other site 279238000779 tyrosyl radical; other site 279238000780 Uncharacterized protein conserved in bacteria (DUF2171); Region: DUF2171; pfam09939 279238000781 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 279238000782 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 279238000783 Class I ribonucleotide reductase; Region: RNR_I; cd01679 279238000784 active site 279238000785 dimer interface [polypeptide binding]; other site 279238000786 catalytic residues [active] 279238000787 effector binding site; other site 279238000788 R2 peptide binding site; other site 279238000789 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 279238000790 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 279238000791 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 279238000792 Walker A motif; other site 279238000793 ATP binding site [chemical binding]; other site 279238000794 Walker B motif; other site 279238000795 arginine finger; other site 279238000796 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 279238000797 DNA polymerase I; Provisional; Region: PRK05755 279238000798 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 279238000799 active site 279238000800 metal binding site 1 [ion binding]; metal-binding site 279238000801 putative 5' ssDNA interaction site; other site 279238000802 metal binding site 3; metal-binding site 279238000803 metal binding site 2 [ion binding]; metal-binding site 279238000804 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 279238000805 putative DNA binding site [nucleotide binding]; other site 279238000806 putative metal binding site [ion binding]; other site 279238000807 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 279238000808 active site 279238000809 catalytic site [active] 279238000810 substrate binding site [chemical binding]; other site 279238000811 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 279238000812 active site 279238000813 DNA binding site [nucleotide binding] 279238000814 catalytic site [active] 279238000815 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 279238000816 Phosphotransferase enzyme family; Region: APH; pfam01636 279238000817 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 279238000818 putative active site [active] 279238000819 putative substrate binding site [chemical binding]; other site 279238000820 ATP binding site [chemical binding]; other site 279238000821 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 279238000822 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 279238000823 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 279238000824 active site 279238000825 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 279238000826 catalytic residue [active] 279238000827 S-adenosylmethionine synthetase; Validated; Region: PRK05250 279238000828 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 279238000829 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 279238000830 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 279238000831 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 279238000832 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 279238000833 putative active site [active] 279238000834 catalytic triad [active] 279238000835 putative dimer interface [polypeptide binding]; other site 279238000836 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 279238000837 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 279238000838 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 279238000839 peptide chain release factor 1; Validated; Region: prfA; PRK00591 279238000840 This domain is found in peptide chain release factors; Region: PCRF; smart00937 279238000841 RF-1 domain; Region: RF-1; pfam00472 279238000842 histidyl-tRNA synthetase; Region: hisS; TIGR00442 279238000843 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 279238000844 dimer interface [polypeptide binding]; other site 279238000845 motif 1; other site 279238000846 active site 279238000847 motif 2; other site 279238000848 motif 3; other site 279238000849 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 279238000850 anticodon binding site; other site 279238000851 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 279238000852 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 279238000853 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 279238000854 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 279238000855 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 279238000856 dimer interface [polypeptide binding]; other site 279238000857 substrate binding site [chemical binding]; other site 279238000858 metal binding sites [ion binding]; metal-binding site 279238000859 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 279238000860 Mechanosensitive ion channel; Region: MS_channel; pfam00924 279238000861 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 279238000862 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 279238000863 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 279238000864 Walker A/P-loop; other site 279238000865 ATP binding site [chemical binding]; other site 279238000866 Q-loop/lid; other site 279238000867 ABC transporter signature motif; other site 279238000868 Walker B; other site 279238000869 D-loop; other site 279238000870 H-loop/switch region; other site 279238000871 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 279238000872 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 279238000873 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 279238000874 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 279238000875 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 279238000876 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 279238000877 active site 279238000878 metal binding site [ion binding]; metal-binding site 279238000879 hexamer interface [polypeptide binding]; other site 279238000880 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 279238000881 heme-binding residues [chemical binding]; other site 279238000882 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 279238000883 heme-binding residues [chemical binding]; other site 279238000884 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 279238000885 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 279238000886 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 279238000887 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 279238000888 ligand binding site [chemical binding]; other site 279238000889 flexible hinge region; other site 279238000890 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 279238000891 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 279238000892 ligand binding site [chemical binding]; other site 279238000893 flexible hinge region; other site 279238000894 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 279238000895 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 279238000896 4Fe-4S binding domain; Region: Fer4; pfam00037 279238000897 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 279238000898 TPR repeat; Region: TPR_11; pfam13414 279238000899 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 279238000900 binding surface 279238000901 TPR motif; other site 279238000902 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 279238000903 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 279238000904 active site 279238000905 phosphorylation site [posttranslational modification] 279238000906 intermolecular recognition site; other site 279238000907 dimerization interface [polypeptide binding]; other site 279238000908 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 279238000909 DNA binding site [nucleotide binding] 279238000910 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 279238000911 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 279238000912 DNA binding residues [nucleotide binding] 279238000913 dimerization interface [polypeptide binding]; other site 279238000914 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 279238000915 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 279238000916 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 279238000917 active site 279238000918 Int/Topo IB signature motif; other site 279238000919 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279238000920 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238000921 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 279238000922 dimerization interface [polypeptide binding]; other site 279238000923 substrate binding pocket [chemical binding]; other site 279238000924 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 279238000925 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 279238000926 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 279238000927 VirB7 interaction site; other site 279238000928 conjugal transfer protein TrbF; Provisional; Region: PRK13872 279238000929 conjugal transfer protein TrbL; Provisional; Region: PRK13875 279238000930 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 279238000931 conjugative transfer region protein TrbK; Region: other_trbK; TIGR04360 279238000932 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 279238000933 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 279238000934 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 279238000935 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 279238000936 Walker A/P-loop; other site 279238000937 ATP binding site [chemical binding]; other site 279238000938 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 279238000939 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 279238000940 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 279238000941 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 279238000942 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 279238000943 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 279238000944 ATP binding site [chemical binding]; other site 279238000945 Walker A motif; other site 279238000946 hexamer interface [polypeptide binding]; other site 279238000947 Walker B motif; other site 279238000948 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 279238000949 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 279238000950 Walker A motif; other site 279238000951 ATP binding site [chemical binding]; other site 279238000952 Walker B motif; other site 279238000953 Cadherin repeat-like domain; Region: CA_like; cl15786 279238000954 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 279238000955 homotrimer interface [polypeptide binding]; other site 279238000956 Walker A motif; other site 279238000957 GTP binding site [chemical binding]; other site 279238000958 Walker B motif; other site 279238000959 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 279238000960 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 279238000961 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 279238000962 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 279238000963 catalytic triad [active] 279238000964 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 279238000965 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 279238000966 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 279238000967 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279238000968 homodimer interface [polypeptide binding]; other site 279238000969 catalytic residue [active] 279238000970 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 279238000971 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 279238000972 catalytic core [active] 279238000973 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 279238000974 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 279238000975 putative dimer interface [polypeptide binding]; other site 279238000976 active site pocket [active] 279238000977 putative cataytic base [active] 279238000978 Protein of unknown function (DUF1636); Region: DUF1636; pfam07845 279238000979 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 279238000980 putative FMN binding site [chemical binding]; other site 279238000981 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 279238000982 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 279238000983 homodimer interface [polypeptide binding]; other site 279238000984 Walker A motif; other site 279238000985 ATP binding site [chemical binding]; other site 279238000986 hydroxycobalamin binding site [chemical binding]; other site 279238000987 Walker B motif; other site 279238000988 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 279238000989 active site 279238000990 SAM binding site [chemical binding]; other site 279238000991 homodimer interface [polypeptide binding]; other site 279238000992 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 279238000993 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 279238000994 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 279238000995 catalytic triad [active] 279238000996 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 279238000997 active site 279238000998 SAM binding site [chemical binding]; other site 279238000999 homodimer interface [polypeptide binding]; other site 279238001000 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 279238001001 active site 279238001002 putative homodimer interface [polypeptide binding]; other site 279238001003 SAM binding site [chemical binding]; other site 279238001004 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 279238001005 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 279238001006 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 279238001007 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 279238001008 active site 279238001009 SAM binding site [chemical binding]; other site 279238001010 homodimer interface [polypeptide binding]; other site 279238001011 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 279238001012 active site 279238001013 SAM binding site [chemical binding]; other site 279238001014 homodimer interface [polypeptide binding]; other site 279238001015 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 279238001016 Precorrin-8X methylmutase; Region: CbiC; pfam02570 279238001017 precorrin-3B synthase; Region: CobG; TIGR02435 279238001018 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 279238001019 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 279238001020 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 279238001021 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 279238001022 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 279238001023 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 279238001024 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 279238001025 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 279238001026 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 279238001027 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238001028 Domain of unknown function(DUF2779); Region: DUF2779; pfam11074 279238001029 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 279238001030 Predicted transcriptional regulator [Transcription]; Region: COG2378 279238001031 WYL domain; Region: WYL; pfam13280 279238001032 DEAD-like helicases superfamily; Region: DEXDc; smart00487 279238001033 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 279238001034 ATP binding site [chemical binding]; other site 279238001035 putative Mg++ binding site [ion binding]; other site 279238001036 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 279238001037 DEAD-like helicases superfamily; Region: DEXDc; smart00487 279238001038 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 279238001039 ATP binding site [chemical binding]; other site 279238001040 putative Mg++ binding site [ion binding]; other site 279238001041 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 279238001042 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 279238001043 nucleotide binding region [chemical binding]; other site 279238001044 ATP-binding site [chemical binding]; other site 279238001045 Methyltransferase domain; Region: Methyltransf_26; pfam13659 279238001046 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 279238001047 Abi-like protein; Region: Abi_2; pfam07751 279238001048 HNH endonuclease; Region: HNH_2; pfam13391 279238001049 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 279238001050 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 279238001051 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 279238001052 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 279238001053 N-acetyl-D-glucosamine binding site [chemical binding]; other site 279238001054 catalytic residue [active] 279238001055 Protein of unknown function (DUF736); Region: DUF736; pfam05284 279238001056 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 279238001057 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 279238001058 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 279238001059 Replication initiator protein A; Region: RPA; pfam10134 279238001060 Helix-turn-helix domain; Region: HTH_17; pfam12728 279238001061 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 279238001062 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 279238001063 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 279238001064 non-specific DNA binding site [nucleotide binding]; other site 279238001065 salt bridge; other site 279238001066 sequence-specific DNA binding site [nucleotide binding]; other site 279238001067 Protein of unknown function (DUF736); Region: DUF736; pfam05284 279238001068 Fic family protein [Function unknown]; Region: COG3177 279238001069 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 279238001070 Fic/DOC family; Region: Fic; pfam02661 279238001071 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 279238001072 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 279238001073 Sulfate transporter family; Region: Sulfate_transp; pfam00916 279238001074 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 279238001075 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 279238001076 Toprim domain; Region: Toprim_3; pfam13362 279238001077 Methyltransferase domain; Region: Methyltransf_26; pfam13659 279238001078 P-loop containing NTP hydrolase pore-1; Region: AAA_34; pfam13872 279238001079 Helicase_C-like; Region: Helicase_C_4; pfam13871 279238001080 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 279238001081 ParB-like nuclease domain; Region: ParBc; pfam02195 279238001082 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 279238001083 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 279238001084 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 279238001085 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 279238001086 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 279238001087 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 279238001088 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 279238001089 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 279238001090 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 279238001091 active site 279238001092 phosphorylation site [posttranslational modification] 279238001093 intermolecular recognition site; other site 279238001094 dimerization interface [polypeptide binding]; other site 279238001095 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 279238001096 DNA binding site [nucleotide binding] 279238001097 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 279238001098 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 279238001099 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 279238001100 dimer interface [polypeptide binding]; other site 279238001101 phosphorylation site [posttranslational modification] 279238001102 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 279238001103 ATP binding site [chemical binding]; other site 279238001104 Mg2+ binding site [ion binding]; other site 279238001105 G-X-G motif; other site 279238001106 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 279238001107 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 279238001108 ligand binding site [chemical binding]; other site 279238001109 TolQ protein; Region: tolQ; TIGR02796 279238001110 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 279238001111 TolR protein; Region: tolR; TIGR02801 279238001112 translocation protein TolB; Provisional; Region: tolB; PRK05137 279238001113 TolB amino-terminal domain; Region: TolB_N; pfam04052 279238001114 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 279238001115 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 279238001116 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 279238001117 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 279238001118 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 279238001119 TrkA-N domain; Region: TrkA_N; pfam02254 279238001120 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 279238001121 Ligand Binding Site [chemical binding]; other site 279238001122 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 279238001123 Ligand Binding Site [chemical binding]; other site 279238001124 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 279238001125 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 279238001126 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 279238001127 TrkA-N domain; Region: TrkA_N; pfam02254 279238001128 TrkA-C domain; Region: TrkA_C; pfam02080 279238001129 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 279238001130 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 279238001131 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 279238001132 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 279238001133 Soluble P-type ATPase [General function prediction only]; Region: COG4087 279238001134 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 279238001135 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 279238001136 Ligand Binding Site [chemical binding]; other site 279238001137 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 279238001138 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 279238001139 dimer interface [polypeptide binding]; other site 279238001140 active site residues [active] 279238001141 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 279238001142 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 279238001143 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 279238001144 Domain of unknown function DUF302; Region: DUF302; pfam03625 279238001145 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 279238001146 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 279238001147 transmembrane helices; other site 279238001148 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 279238001149 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 279238001150 L-aspartate oxidase; Provisional; Region: PRK09077 279238001151 L-aspartate oxidase; Provisional; Region: PRK06175 279238001152 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 279238001153 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 279238001154 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 279238001155 Walker A/P-loop; other site 279238001156 ATP binding site [chemical binding]; other site 279238001157 Q-loop/lid; other site 279238001158 ABC transporter signature motif; other site 279238001159 Walker B; other site 279238001160 D-loop; other site 279238001161 H-loop/switch region; other site 279238001162 Zinc-finger domain; Region: zf-CHCC; pfam10276 279238001163 protease TldD; Provisional; Region: tldD; PRK10735 279238001164 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 279238001165 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 279238001166 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279238001167 Coenzyme A binding pocket [chemical binding]; other site 279238001168 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 279238001169 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 279238001170 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 279238001171 hypothetical protein; Validated; Region: PRK00110 279238001172 hypothetical protein; Provisional; Region: PRK09272 279238001173 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 279238001174 active site 279238001175 putative DNA-binding cleft [nucleotide binding]; other site 279238001176 dimer interface [polypeptide binding]; other site 279238001177 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 279238001178 RuvA N terminal domain; Region: RuvA_N; pfam01330 279238001179 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 279238001180 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 279238001181 Walker A motif; other site 279238001182 ATP binding site [chemical binding]; other site 279238001183 Walker B motif; other site 279238001184 arginine finger; other site 279238001185 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 279238001186 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 279238001187 aconitate hydratase; Validated; Region: PRK09277 279238001188 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 279238001189 substrate binding site [chemical binding]; other site 279238001190 ligand binding site [chemical binding]; other site 279238001191 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 279238001192 substrate binding site [chemical binding]; other site 279238001193 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 279238001194 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 279238001195 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 279238001196 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279238001197 Coenzyme A binding pocket [chemical binding]; other site 279238001198 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 279238001199 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 279238001200 pyruvate kinase; Provisional; Region: PRK06247 279238001201 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 279238001202 domain interfaces; other site 279238001203 active site 279238001204 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 279238001205 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 279238001206 catalytic residue [active] 279238001207 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 279238001208 active site 279238001209 thiamine phosphate binding site [chemical binding]; other site 279238001210 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 279238001211 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 279238001212 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 279238001213 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 279238001214 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 279238001215 active site 279238001216 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 279238001217 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 279238001218 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 279238001219 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 279238001220 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 279238001221 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 279238001222 active site 279238001223 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 279238001224 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 279238001225 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 279238001226 Ca2+ binding site [ion binding]; other site 279238001227 EF-hand domain pair; Region: EF_hand_5; pfam13499 279238001228 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 279238001229 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 279238001230 active site 279238001231 phosphorylation site [posttranslational modification] 279238001232 intermolecular recognition site; other site 279238001233 dimerization interface [polypeptide binding]; other site 279238001234 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 279238001235 DNA binding site [nucleotide binding] 279238001236 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 279238001237 dimer interface [polypeptide binding]; other site 279238001238 phosphorylation site [posttranslational modification] 279238001239 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 279238001240 ATP binding site [chemical binding]; other site 279238001241 Mg2+ binding site [ion binding]; other site 279238001242 G-X-G motif; other site 279238001243 Peptidase family M1; Region: Peptidase_M1; pfam01433 279238001244 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 279238001245 Zn binding site [ion binding]; other site 279238001246 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 279238001247 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 279238001248 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 279238001249 chorismate binding enzyme; Region: Chorismate_bind; cl10555 279238001250 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 279238001251 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 279238001252 substrate-cofactor binding pocket; other site 279238001253 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279238001254 homodimer interface [polypeptide binding]; other site 279238001255 catalytic residue [active] 279238001256 aspartate aminotransferase; Provisional; Region: PRK05764 279238001257 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 279238001258 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279238001259 homodimer interface [polypeptide binding]; other site 279238001260 catalytic residue [active] 279238001261 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 279238001262 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 279238001263 active site 279238001264 hypothetical protein; Provisional; Region: PRK09256 279238001265 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 279238001266 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 279238001267 hinge; other site 279238001268 active site 279238001269 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 279238001270 active site 279238001271 tetramer interface; other site 279238001272 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238001273 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238001274 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 279238001275 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 279238001276 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 279238001277 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 279238001278 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 279238001279 Metal-binding active site; metal-binding site 279238001280 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 279238001281 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238001282 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 279238001283 N-terminal plug; other site 279238001284 ligand-binding site [chemical binding]; other site 279238001285 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 279238001286 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 279238001287 putative catalytic residue [active] 279238001288 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 279238001289 Ligand binding site [chemical binding]; other site 279238001290 Electron transfer flavoprotein domain; Region: ETF; pfam01012 279238001291 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 279238001292 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 279238001293 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 279238001294 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279238001295 Coenzyme A binding pocket [chemical binding]; other site 279238001296 RDD family; Region: RDD; pfam06271 279238001297 Uncharacterized membrane protein [Function unknown]; Region: SpoIIM; COG1300 279238001298 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 279238001299 Protein of unknown function DUF58; Region: DUF58; pfam01882 279238001300 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 279238001301 metal ion-dependent adhesion site (MIDAS); other site 279238001302 MoxR-like ATPases [General function prediction only]; Region: COG0714 279238001303 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 279238001304 Walker A motif; other site 279238001305 ATP binding site [chemical binding]; other site 279238001306 Walker B motif; other site 279238001307 arginine finger; other site 279238001308 prephenate dehydratase; Provisional; Region: PRK11899 279238001309 Prephenate dehydratase; Region: PDT; pfam00800 279238001310 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 279238001311 putative L-Phe binding site [chemical binding]; other site 279238001312 Cytochrome c; Region: Cytochrom_C; cl11414 279238001313 Cytochrome c2 [Energy production and conversion]; Region: COG3474 279238001314 Predicted transcriptional regulators [Transcription]; Region: COG1733 279238001315 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 279238001316 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 279238001317 NADH(P)-binding; Region: NAD_binding_10; pfam13460 279238001318 NAD binding site [chemical binding]; other site 279238001319 putative active site [active] 279238001320 substrate binding site [chemical binding]; other site 279238001321 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 279238001322 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 279238001323 S-adenosylmethionine binding site [chemical binding]; other site 279238001324 exopolyphosphatase; Region: exo_poly_only; TIGR03706 279238001325 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 279238001326 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 279238001327 Sulfatase; Region: Sulfatase; pfam00884 279238001328 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 279238001329 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 279238001330 active site 279238001331 catalytic tetrad [active] 279238001332 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 279238001333 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238001334 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 279238001335 putative effector binding pocket; other site 279238001336 putative dimerization interface [polypeptide binding]; other site 279238001337 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 279238001338 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 279238001339 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 279238001340 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 279238001341 dimer interface [polypeptide binding]; other site 279238001342 substrate binding site [chemical binding]; other site 279238001343 ATP binding site [chemical binding]; other site 279238001344 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 279238001345 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 279238001346 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 279238001347 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 279238001348 active site 279238001349 substrate binding site [chemical binding]; other site 279238001350 metal binding site [ion binding]; metal-binding site 279238001351 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 279238001352 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 279238001353 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 279238001354 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 279238001355 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 279238001356 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 279238001357 RNA polymerase sigma factor; Provisional; Region: PRK12547 279238001358 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279238001359 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 279238001360 DNA binding residues [nucleotide binding] 279238001361 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 279238001362 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 279238001363 HWE histidine kinase; Region: HWE_HK; pfam07536 279238001364 two-component response regulator; Provisional; Region: PRK09191 279238001365 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 279238001366 active site 279238001367 phosphorylation site [posttranslational modification] 279238001368 intermolecular recognition site; other site 279238001369 dimerization interface [polypeptide binding]; other site 279238001370 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 279238001371 active site 279238001372 phosphorylation site [posttranslational modification] 279238001373 intermolecular recognition site; other site 279238001374 dimerization interface [polypeptide binding]; other site 279238001375 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 279238001376 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 279238001377 ligand binding site [chemical binding]; other site 279238001378 flexible hinge region; other site 279238001379 putative switch regulator; other site 279238001380 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 279238001381 non-specific DNA interactions [nucleotide binding]; other site 279238001382 DNA binding site [nucleotide binding] 279238001383 sequence specific DNA binding site [nucleotide binding]; other site 279238001384 putative cAMP binding site [chemical binding]; other site 279238001385 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 279238001386 Response regulator receiver domain; Region: Response_reg; pfam00072 279238001387 active site 279238001388 phosphorylation site [posttranslational modification] 279238001389 intermolecular recognition site; other site 279238001390 dimerization interface [polypeptide binding]; other site 279238001391 putative acetyltransferase; Provisional; Region: PRK03624 279238001392 Fatty acid desaturase; Region: FA_desaturase; pfam00487 279238001393 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 279238001394 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YgaP, and similar uncharacterized putative rhodanese-related sulfurtransferases; Region: RHOD_YgaP; cd01527 279238001395 active site residue [active] 279238001396 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 279238001397 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 279238001398 Predicted permeases [General function prediction only]; Region: COG0795 279238001399 Predicted permeases [General function prediction only]; Region: COG0795 279238001400 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 279238001401 Uncharacterized conserved protein [Function unknown]; Region: COG2127 279238001402 Phasin protein; Region: Phasin_2; pfam09361 279238001403 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 279238001404 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 279238001405 aminotransferase; Validated; Region: PRK09148 279238001406 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 279238001407 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279238001408 homodimer interface [polypeptide binding]; other site 279238001409 catalytic residue [active] 279238001410 enoyl-CoA hydratase; Provisional; Region: PRK07509 279238001411 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 279238001412 substrate binding site [chemical binding]; other site 279238001413 oxyanion hole (OAH) forming residues; other site 279238001414 trimer interface [polypeptide binding]; other site 279238001415 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 279238001416 RNB domain; Region: RNB; pfam00773 279238001417 Excalibur calcium-binding domain; Region: Excalibur; smart00894 279238001418 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u4; cd11541 279238001419 putative metal binding site [ion binding]; other site 279238001420 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 279238001421 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 279238001422 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 279238001423 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 279238001424 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; cl00159 279238001425 catalytic loop [active] 279238001426 iron binding site [ion binding]; other site 279238001427 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 279238001428 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 279238001429 enoyl-CoA hydratase; Provisional; Region: PRK06494 279238001430 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 279238001431 substrate binding site [chemical binding]; other site 279238001432 oxyanion hole (OAH) forming residues; other site 279238001433 trimer interface [polypeptide binding]; other site 279238001434 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238001435 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279238001436 NAD(P) binding site [chemical binding]; other site 279238001437 active site 279238001438 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 279238001439 Hypothetical enzyme TM0436 resembles the zinc-dependent alcohol dehydrogenases (ADH); Region: MDR_TM0436_like; cd08231 279238001440 catalytic Zn binding site [ion binding]; other site 279238001441 structural Zn binding site [ion binding]; other site 279238001442 tetramer interface [polypeptide binding]; other site 279238001443 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 279238001444 Cytochrome P450; Region: p450; cl12078 279238001445 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 279238001446 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238001447 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238001448 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 279238001449 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 279238001450 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 279238001451 substrate binding site [chemical binding]; other site 279238001452 oxyanion hole (OAH) forming residues; other site 279238001453 trimer interface [polypeptide binding]; other site 279238001454 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 279238001455 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 279238001456 acyl-activating enzyme (AAE) consensus motif; other site 279238001457 AMP binding site [chemical binding]; other site 279238001458 active site 279238001459 CoA binding site [chemical binding]; other site 279238001460 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 279238001461 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 279238001462 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 279238001463 dimerization interface [polypeptide binding]; other site 279238001464 active site 279238001465 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238001466 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238001467 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 279238001468 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 279238001469 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238001470 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 279238001471 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 279238001472 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 279238001473 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 279238001474 catalytic residues [active] 279238001475 catalytic nucleophile [active] 279238001476 Recombinase; Region: Recombinase; pfam07508 279238001477 ParB-like nuclease domain; Region: ParB; smart00470 279238001478 RepB plasmid partitioning protein; Region: RepB; pfam07506 279238001479 ParB-like nuclease domain; Region: ParB; smart00470 279238001480 RepB plasmid partitioning protein; Region: RepB; pfam07506 279238001481 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 279238001482 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 279238001483 Acyltransferase family; Region: Acyl_transf_3; pfam01757 279238001484 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238001485 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238001486 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238001487 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238001488 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 279238001489 Sulfatase; Region: Sulfatase; pfam00884 279238001490 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 279238001491 Sulfatase; Region: Sulfatase; pfam00884 279238001492 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 279238001493 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 279238001494 Uncharacterized conserved protein [Function unknown]; Region: COG1262 279238001495 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 279238001496 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 279238001497 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238001498 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 279238001499 dimerizarion interface [polypeptide binding]; other site 279238001500 CrgA pocket; other site 279238001501 substrate binding pocket [chemical binding]; other site 279238001502 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 279238001503 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 279238001504 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 279238001505 putative alpha subunit interface [polypeptide binding]; other site 279238001506 putative active site [active] 279238001507 putative substrate binding site [chemical binding]; other site 279238001508 Fe binding site [ion binding]; other site 279238001509 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 279238001510 inter-subunit interface; other site 279238001511 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 279238001512 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238001513 NAD(P) binding site [chemical binding]; other site 279238001514 active site 279238001515 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279238001516 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238001517 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 279238001518 dimerization interface [polypeptide binding]; other site 279238001519 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 279238001520 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 279238001521 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 279238001522 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 279238001523 dimer interface [polypeptide binding]; other site 279238001524 active site 279238001525 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 279238001526 galactokinase; Provisional; Region: PRK05101 279238001527 Autotransporter beta-domain; Region: Autotransporter; pfam03797 279238001528 RNA polymerase sigma factor; Reviewed; Region: PRK05602 279238001529 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279238001530 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 279238001531 DNA binding residues [nucleotide binding] 279238001532 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 279238001533 active site 279238001534 putative acetyltransferase; Provisional; Region: PRK03624 279238001535 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279238001536 Coenzyme A binding pocket [chemical binding]; other site 279238001537 GMP synthase; Reviewed; Region: guaA; PRK00074 279238001538 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 279238001539 AMP/PPi binding site [chemical binding]; other site 279238001540 candidate oxyanion hole; other site 279238001541 catalytic triad [active] 279238001542 potential glutamine specificity residues [chemical binding]; other site 279238001543 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 279238001544 ATP Binding subdomain [chemical binding]; other site 279238001545 Ligand Binding sites [chemical binding]; other site 279238001546 Dimerization subdomain; other site 279238001547 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 279238001548 active site 279238001549 HIGH motif; other site 279238001550 nucleotide binding site [chemical binding]; other site 279238001551 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 279238001552 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 279238001553 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 279238001554 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 279238001555 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 279238001556 Catalytic site; other site 279238001557 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 279238001558 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238001559 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 279238001560 non-specific DNA binding site [nucleotide binding]; other site 279238001561 salt bridge; other site 279238001562 sequence-specific DNA binding site [nucleotide binding]; other site 279238001563 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 279238001564 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 279238001565 putative active site [active] 279238001566 putative metal binding site [ion binding]; other site 279238001567 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 279238001568 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 279238001569 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 279238001570 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 279238001571 putative acyl-acceptor binding pocket; other site 279238001572 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5349 279238001573 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 279238001574 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 279238001575 putative C-terminal domain interface [polypeptide binding]; other site 279238001576 putative GSH binding site (G-site) [chemical binding]; other site 279238001577 putative dimer interface [polypeptide binding]; other site 279238001578 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 279238001579 putative N-terminal domain interface [polypeptide binding]; other site 279238001580 putative dimer interface [polypeptide binding]; other site 279238001581 putative substrate binding pocket (H-site) [chemical binding]; other site 279238001582 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 279238001583 catalytic residues [active] 279238001584 dimer interface [polypeptide binding]; other site 279238001585 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 279238001586 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 279238001587 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279238001588 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238001589 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 279238001590 dimerization interface [polypeptide binding]; other site 279238001591 epoxide hydrolase N-terminal domain-like phosphatase; Region: HAD-1A3-hyp; TIGR02247 279238001592 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 279238001593 motif II; other site 279238001594 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 279238001595 Ligand Binding Site [chemical binding]; other site 279238001596 Predicted membrane protein [Function unknown]; Region: COG3650 279238001597 AAA family ATPase, CDC48 subfamily; Region: CDC48; TIGR01243 279238001598 Cell division protein 48 (CDC48), N-terminal domain; Region: CDC48_N; pfam02359 279238001599 Cell division protein 48 (CDC48), domain 2; Region: CDC48_2; pfam02933 279238001600 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 279238001601 Walker A motif; other site 279238001602 ATP binding site [chemical binding]; other site 279238001603 Walker B motif; other site 279238001604 arginine finger; other site 279238001605 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 279238001606 Walker A motif; other site 279238001607 ATP binding site [chemical binding]; other site 279238001608 Walker B motif; other site 279238001609 arginine finger; other site 279238001610 CHASE3 domain; Region: CHASE3; pfam05227 279238001611 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 279238001612 HWE histidine kinase; Region: HWE_HK; smart00911 279238001613 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 279238001614 Ribonuclease P; Region: Ribonuclease_P; pfam00825 279238001615 Haemolytic domain; Region: Haemolytic; pfam01809 279238001616 membrane protein insertase; Provisional; Region: PRK01318 279238001617 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 279238001618 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 279238001619 G1 box; other site 279238001620 GTP/Mg2+ binding site [chemical binding]; other site 279238001621 Switch I region; other site 279238001622 G2 box; other site 279238001623 G3 box; other site 279238001624 Switch II region; other site 279238001625 G4 box; other site 279238001626 G5 box; other site 279238001627 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 279238001628 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 279238001629 putative C-terminal domain interface [polypeptide binding]; other site 279238001630 putative GSH binding site (G-site) [chemical binding]; other site 279238001631 putative dimer interface [polypeptide binding]; other site 279238001632 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 279238001633 putative N-terminal domain interface [polypeptide binding]; other site 279238001634 putative dimer interface [polypeptide binding]; other site 279238001635 putative substrate binding pocket (H-site) [chemical binding]; other site 279238001636 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 279238001637 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 279238001638 metal binding site [ion binding]; metal-binding site 279238001639 dimer interface [polypeptide binding]; other site 279238001640 Smr domain; Region: Smr; pfam01713 279238001641 MltA specific insert domain; Region: MltA; smart00925 279238001642 3D domain; Region: 3D; pfam06725 279238001643 Tim44-like domain; Region: Tim44; pfam04280 279238001644 Preprotein translocase subunit SecB; Region: SecB; pfam02556 279238001645 SecA binding site; other site 279238001646 Preprotein binding site; other site 279238001647 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 279238001648 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 279238001649 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 279238001650 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 279238001651 active site 279238001652 HIGH motif; other site 279238001653 dimer interface [polypeptide binding]; other site 279238001654 KMSKS motif; other site 279238001655 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 279238001656 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 279238001657 trimer interface [polypeptide binding]; other site 279238001658 active site 279238001659 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 279238001660 Flavoprotein; Region: Flavoprotein; pfam02441 279238001661 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 279238001662 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 279238001663 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 279238001664 ABC1 family; Region: ABC1; pfam03109 279238001665 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 279238001666 active site 279238001667 ATP binding site [chemical binding]; other site 279238001668 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 279238001669 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 279238001670 S-adenosylmethionine binding site [chemical binding]; other site 279238001671 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 279238001672 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 279238001673 DNA binding site [nucleotide binding] 279238001674 catalytic residue [active] 279238001675 H2TH interface [polypeptide binding]; other site 279238001676 putative catalytic residues [active] 279238001677 turnover-facilitating residue; other site 279238001678 intercalation triad [nucleotide binding]; other site 279238001679 8OG recognition residue [nucleotide binding]; other site 279238001680 putative reading head residues; other site 279238001681 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 279238001682 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 279238001683 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 279238001684 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 279238001685 dimer interface [polypeptide binding]; other site 279238001686 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 279238001687 active site 279238001688 Fe binding site [ion binding]; other site 279238001689 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 279238001690 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 279238001691 putative DNA binding site [nucleotide binding]; other site 279238001692 putative Zn2+ binding site [ion binding]; other site 279238001693 AsnC family; Region: AsnC_trans_reg; pfam01037 279238001694 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279238001695 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238001696 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 279238001697 dimerization interface [polypeptide binding]; other site 279238001698 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 279238001699 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 279238001700 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 279238001701 TPR repeat; Region: TPR_11; pfam13414 279238001702 TPR motif; other site 279238001703 binding surface 279238001704 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 279238001705 Uncharacterized conserved protein [Function unknown]; Region: COG3391 279238001706 allophanate hydrolase; Region: allophanate_hyd; TIGR02713 279238001707 Amidase; Region: Amidase; cl11426 279238001708 urea carboxylase; Region: urea_carbox; TIGR02712 279238001709 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 279238001710 ATP-grasp domain; Region: ATP-grasp_4; cl17255 279238001711 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 279238001712 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 279238001713 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 279238001714 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 279238001715 carboxyltransferase (CT) interaction site; other site 279238001716 biotinylation site [posttranslational modification]; other site 279238001717 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 279238001718 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 279238001719 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 279238001720 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 279238001721 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 279238001722 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 279238001723 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 279238001724 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 279238001725 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 279238001726 Walker A/P-loop; other site 279238001727 ATP binding site [chemical binding]; other site 279238001728 Q-loop/lid; other site 279238001729 ABC transporter signature motif; other site 279238001730 Walker B; other site 279238001731 D-loop; other site 279238001732 H-loop/switch region; other site 279238001733 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 279238001734 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 279238001735 putative PBP binding loops; other site 279238001736 dimer interface [polypeptide binding]; other site 279238001737 ABC-ATPase subunit interface; other site 279238001738 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 279238001739 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 279238001740 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238001741 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 279238001742 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 279238001743 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 279238001744 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 279238001745 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 279238001746 active site 279238001747 catalytic residues [active] 279238001748 DNA binding site [nucleotide binding] 279238001749 Int/Topo IB signature motif; other site 279238001750 MT-A70; Region: MT-A70; cl01947 279238001751 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 279238001752 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 279238001753 DNA-sulfur modification-associated; Region: DndB; cl17621 279238001754 HIRAN domain; Region: HIRAN; pfam08797 279238001755 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 279238001756 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 279238001757 non-specific DNA binding site [nucleotide binding]; other site 279238001758 salt bridge; other site 279238001759 sequence-specific DNA binding site [nucleotide binding]; other site 279238001760 Predicted transcriptional regulator [Transcription]; Region: COG2932 279238001761 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 279238001762 Catalytic site [active] 279238001763 DNA polymerase III subunit beta; Validated; Region: PRK05643 279238001764 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 279238001765 putative DNA binding surface [nucleotide binding]; other site 279238001766 dimer interface [polypeptide binding]; other site 279238001767 beta-clamp/clamp loader binding surface; other site 279238001768 beta-clamp/translesion DNA polymerase binding surface; other site 279238001769 DNA primase, catalytic core; Region: dnaG; TIGR01391 279238001770 CHC2 zinc finger; Region: zf-CHC2; pfam01807 279238001771 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 279238001772 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 279238001773 active site 279238001774 metal binding site [ion binding]; metal-binding site 279238001775 interdomain interaction site; other site 279238001776 D5 N terminal like; Region: D5_N; smart00885 279238001777 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 279238001778 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 279238001779 active site 279238001780 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 279238001781 Phage portal protein; Region: Phage_portal; pfam04860 279238001782 Phage-related protein [Function unknown]; Region: COG4695 279238001783 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 279238001784 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 279238001785 Phage capsid family; Region: Phage_capsid; pfam05065 279238001786 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 279238001787 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 279238001788 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 279238001789 oligomerization interface [polypeptide binding]; other site 279238001790 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 279238001791 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 279238001792 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 279238001793 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 279238001794 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 279238001795 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 279238001796 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 279238001797 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 279238001798 CoA binding domain; Region: CoA_binding_2; pfam13380 279238001799 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 279238001800 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 279238001801 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 279238001802 active site 279238001803 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 279238001804 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 279238001805 cytochrome b; Provisional; Region: CYTB; MTH00191 279238001806 interchain domain interface [polypeptide binding]; other site 279238001807 intrachain domain interface; other site 279238001808 heme bH binding site [chemical binding]; other site 279238001809 Qi binding site; other site 279238001810 heme bL binding site [chemical binding]; other site 279238001811 Qo binding site; other site 279238001812 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 279238001813 interchain domain interface [polypeptide binding]; other site 279238001814 intrachain domain interface; other site 279238001815 Qi binding site; other site 279238001816 Qo binding site; other site 279238001817 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 279238001818 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 279238001819 [2Fe-2S] cluster binding site [ion binding]; other site 279238001820 Uncharacterized conserved protein [Function unknown]; Region: COG1565 279238001821 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 279238001822 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 279238001823 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 279238001824 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 279238001825 acyl-activating enzyme (AAE) consensus motif; other site 279238001826 acyl-activating enzyme (AAE) consensus motif; other site 279238001827 putative AMP binding site [chemical binding]; other site 279238001828 putative active site [active] 279238001829 putative CoA binding site [chemical binding]; other site 279238001830 PII uridylyl-transferase; Provisional; Region: PRK05092 279238001831 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 279238001832 metal binding triad; other site 279238001833 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 279238001834 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 279238001835 Zn2+ binding site [ion binding]; other site 279238001836 Mg2+ binding site [ion binding]; other site 279238001837 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 279238001838 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 279238001839 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 279238001840 homoserine O-succinyltransferase; Provisional; Region: PRK05368 279238001841 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 279238001842 proposed active site lysine [active] 279238001843 conserved cys residue [active] 279238001844 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 279238001845 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 279238001846 23S rRNA binding site [nucleotide binding]; other site 279238001847 L21 binding site [polypeptide binding]; other site 279238001848 L13 binding site [polypeptide binding]; other site 279238001849 Helix-turn-helix domain; Region: HTH_18; pfam12833 279238001850 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 279238001851 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 279238001852 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 279238001853 dimer interface [polypeptide binding]; other site 279238001854 motif 1; other site 279238001855 active site 279238001856 motif 2; other site 279238001857 motif 3; other site 279238001858 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 279238001859 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 279238001860 putative tRNA-binding site [nucleotide binding]; other site 279238001861 B3/4 domain; Region: B3_4; pfam03483 279238001862 tRNA synthetase B5 domain; Region: B5; smart00874 279238001863 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 279238001864 dimer interface [polypeptide binding]; other site 279238001865 motif 1; other site 279238001866 motif 3; other site 279238001867 motif 2; other site 279238001868 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 279238001869 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 279238001870 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 279238001871 G1 box; other site 279238001872 putative GEF interaction site [polypeptide binding]; other site 279238001873 GTP/Mg2+ binding site [chemical binding]; other site 279238001874 Switch I region; other site 279238001875 G2 box; other site 279238001876 G3 box; other site 279238001877 Switch II region; other site 279238001878 G4 box; other site 279238001879 G5 box; other site 279238001880 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 279238001881 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 279238001882 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 279238001883 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 279238001884 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 279238001885 putative catalytic site [active] 279238001886 putative metal binding site [ion binding]; other site 279238001887 putative phosphate binding site [ion binding]; other site 279238001888 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 279238001889 Nitrogen regulatory protein P-II; Region: P-II; smart00938 279238001890 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 279238001891 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 279238001892 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 279238001893 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279238001894 homodimer interface [polypeptide binding]; other site 279238001895 catalytic residue [active] 279238001896 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 279238001897 prephenate dehydrogenase; Validated; Region: PRK08507 279238001898 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 279238001899 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 279238001900 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 279238001901 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 279238001902 putative acyl-acceptor binding pocket; other site 279238001903 Uncharacterized conserved protein [Function unknown]; Region: COG1434 279238001904 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 279238001905 putative active site [active] 279238001906 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 279238001907 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 279238001908 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 279238001909 Walker A/P-loop; other site 279238001910 ATP binding site [chemical binding]; other site 279238001911 Q-loop/lid; other site 279238001912 ABC transporter signature motif; other site 279238001913 Walker B; other site 279238001914 D-loop; other site 279238001915 H-loop/switch region; other site 279238001916 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 279238001917 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 279238001918 hypothetical protein; Provisional; Region: PRK06194 279238001919 classical (c) SDRs; Region: SDR_c; cd05233 279238001920 NAD(P) binding site [chemical binding]; other site 279238001921 active site 279238001922 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 279238001923 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 279238001924 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 279238001925 NAD(P) binding site [chemical binding]; other site 279238001926 catalytic residues [active] 279238001927 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 279238001928 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 279238001929 putative DNA binding site [nucleotide binding]; other site 279238001930 putative Zn2+ binding site [ion binding]; other site 279238001931 AsnC family; Region: AsnC_trans_reg; pfam01037 279238001932 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238001933 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238001934 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 279238001935 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 279238001936 iron-sulfur cluster [ion binding]; other site 279238001937 [2Fe-2S] cluster binding site [ion binding]; other site 279238001938 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 279238001939 hydrophobic ligand binding site; other site 279238001940 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 279238001941 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 279238001942 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238001943 putative substrate translocation pore; other site 279238001944 D-galactonate transporter; Region: 2A0114; TIGR00893 279238001945 hypothetical protein; Provisional; Region: PRK06847 279238001946 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 279238001947 N-terminal, non-catalytic, domain of BphC5 (2,3-dihydroxybiphenyl 1,2-dioxygenase) from Rhodococcus rhodochrous K37, and similar proteins; Region: BphC5-RrK37_N_like; cd08362 279238001948 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 279238001949 putative oligomer interface [polypeptide binding]; other site 279238001950 C-terminal, catalytic, domain of BphC5 (2,3-dihydroxybiphenyl 1,2-dioxygenase) from Bacterium Rhodococcus rhodochrous K37 and similar proteins; Region: BphC5-RK37_C_like; cd07239 279238001951 putative active site [active] 279238001952 Mn binding site [ion binding]; other site 279238001953 putative oligomer interface [polypeptide binding]; other site 279238001954 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 279238001955 Putative cyclase; Region: Cyclase; pfam04199 279238001956 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 279238001957 AAA domain; Region: AAA_26; pfam13500 279238001958 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 279238001959 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 279238001960 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 279238001961 catalytic residue [active] 279238001962 biotin synthase; Region: bioB; TIGR00433 279238001963 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 279238001964 FeS/SAM binding site; other site 279238001965 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 279238001966 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 279238001967 Vi polysaccharide export ATP-binding protein VexC; Provisional; Region: PRK15177 279238001968 Walker A/P-loop; other site 279238001969 ATP binding site [chemical binding]; other site 279238001970 Q-loop/lid; other site 279238001971 ABC transporter signature motif; other site 279238001972 Walker B; other site 279238001973 D-loop; other site 279238001974 H-loop/switch region; other site 279238001975 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 279238001976 ABC-2 type transporter; Region: ABC2_membrane; cl17235 279238001977 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 279238001978 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 279238001979 S-adenosylmethionine binding site [chemical binding]; other site 279238001980 Protein of unknown function (DUF616); Region: DUF616; pfam04765 279238001981 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 279238001982 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 279238001983 Probable Catalytic site; other site 279238001984 metal-binding site 279238001985 Methyltransferase domain; Region: Methyltransf_23; pfam13489 279238001986 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 279238001987 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 279238001988 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 279238001989 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 279238001990 putative active site [active] 279238001991 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 279238001992 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 279238001993 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 279238001994 active site 279238001995 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 279238001996 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 279238001997 Probable Catalytic site; other site 279238001998 metal-binding site 279238001999 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 279238002000 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 279238002001 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 279238002002 putative dimer interface [polypeptide binding]; other site 279238002003 [2Fe-2S] cluster binding site [ion binding]; other site 279238002004 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 279238002005 putative dimer interface [polypeptide binding]; other site 279238002006 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 279238002007 SLBB domain; Region: SLBB; pfam10531 279238002008 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 279238002009 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 279238002010 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 279238002011 GTP binding site; other site 279238002012 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 279238002013 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 279238002014 catalytic loop [active] 279238002015 iron binding site [ion binding]; other site 279238002016 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 279238002017 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 279238002018 [4Fe-4S] binding site [ion binding]; other site 279238002019 molybdopterin cofactor binding site; other site 279238002020 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 279238002021 molybdopterin cofactor binding site; other site 279238002022 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 279238002023 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 279238002024 Response regulator receiver domain; Region: Response_reg; pfam00072 279238002025 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 279238002026 active site 279238002027 phosphorylation site [posttranslational modification] 279238002028 intermolecular recognition site; other site 279238002029 dimerization interface [polypeptide binding]; other site 279238002030 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 279238002031 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 279238002032 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 279238002033 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 279238002034 active site 279238002035 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 279238002036 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 279238002037 Substrate binding site; other site 279238002038 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 279238002039 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 279238002040 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 279238002041 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 279238002042 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 279238002043 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 279238002044 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 279238002045 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 279238002046 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 279238002047 Walker A/P-loop; other site 279238002048 ATP binding site [chemical binding]; other site 279238002049 Q-loop/lid; other site 279238002050 ABC transporter signature motif; other site 279238002051 Walker B; other site 279238002052 D-loop; other site 279238002053 H-loop/switch region; other site 279238002054 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 279238002055 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 279238002056 TPR motif; other site 279238002057 TPR repeat; Region: TPR_11; pfam13414 279238002058 binding surface 279238002059 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 279238002060 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 279238002061 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 279238002062 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 279238002063 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 279238002064 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 279238002065 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 279238002066 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 279238002067 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238002068 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 279238002069 N-terminal plug; other site 279238002070 ligand-binding site [chemical binding]; other site 279238002071 Transcriptional regulators [Transcription]; Region: PurR; COG1609 279238002072 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 279238002073 DNA binding site [nucleotide binding] 279238002074 domain linker motif; other site 279238002075 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 279238002076 putative ligand binding site [chemical binding]; other site 279238002077 putative dimerization interface [polypeptide binding]; other site 279238002078 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 279238002079 xylulokinase; Provisional; Region: PRK15027 279238002080 N- and C-terminal domain interface [polypeptide binding]; other site 279238002081 active site 279238002082 MgATP binding site [chemical binding]; other site 279238002083 catalytic site [active] 279238002084 metal binding site [ion binding]; metal-binding site 279238002085 xylulose binding site [chemical binding]; other site 279238002086 homodimer interface [polypeptide binding]; other site 279238002087 xylose isomerase; Provisional; Region: PRK05474 279238002088 xylose isomerase; Region: xylose_isom_A; TIGR02630 279238002089 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 279238002090 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279238002091 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279238002092 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 279238002093 Cytochrome P450; Region: p450; cl12078 279238002094 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 279238002095 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 279238002096 N-terminal plug; other site 279238002097 ligand-binding site [chemical binding]; other site 279238002098 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 279238002099 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 279238002100 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 279238002101 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 279238002102 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 279238002103 active site 279238002104 substrate binding site [chemical binding]; other site 279238002105 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 279238002106 FMN binding site [chemical binding]; other site 279238002107 putative catalytic residues [active] 279238002108 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 279238002109 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 279238002110 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 279238002111 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238002112 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238002113 WHG domain; Region: WHG; pfam13305 279238002114 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 279238002115 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 279238002116 N-terminal plug; other site 279238002117 ligand-binding site [chemical binding]; other site 279238002118 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 279238002119 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 279238002120 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238002121 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238002122 WHG domain; Region: WHG; pfam13305 279238002123 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 279238002124 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238002125 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 279238002126 Dienelactone hydrolase family; Region: DLH; pfam01738 279238002127 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 279238002128 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 279238002129 beta-galactosidase; Region: BGL; TIGR03356 279238002130 DDE domain; Region: DDE_Tnp_IS240; pfam13610 279238002131 Protein of unknown function (DUF1134); Region: DUF1134; pfam06577 279238002132 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 279238002133 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 279238002134 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279238002135 homodimer interface [polypeptide binding]; other site 279238002136 catalytic residue [active] 279238002137 hypothetical protein; Provisional; Region: PRK06194 279238002138 classical (c) SDRs; Region: SDR_c; cd05233 279238002139 NAD(P) binding site [chemical binding]; other site 279238002140 active site 279238002141 hypothetical protein; Provisional; Region: PRK06194 279238002142 classical (c) SDRs; Region: SDR_c; cd05233 279238002143 NAD(P) binding site [chemical binding]; other site 279238002144 active site 279238002145 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238002146 Major Facilitator Superfamily; Region: MFS_1; pfam07690 279238002147 putative substrate translocation pore; other site 279238002148 SnoaL-like domain; Region: SnoaL_4; pfam13577 279238002149 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 279238002150 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 279238002151 tetramerization interface [polypeptide binding]; other site 279238002152 NAD(P) binding site [chemical binding]; other site 279238002153 catalytic residues [active] 279238002154 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 279238002155 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 279238002156 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238002157 Major Facilitator Superfamily; Region: MFS_1; pfam07690 279238002158 putative substrate translocation pore; other site 279238002159 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238002160 hypothetical protein; Provisional; Region: PRK00872 279238002161 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 279238002162 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 279238002163 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 279238002164 MarR family; Region: MarR; pfam01047 279238002165 benzoate transport; Region: 2A0115; TIGR00895 279238002166 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238002167 putative substrate translocation pore; other site 279238002168 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 279238002169 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 279238002170 active site 279238002171 dimer interface [polypeptide binding]; other site 279238002172 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 279238002173 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 279238002174 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 279238002175 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 279238002176 non-specific DNA binding site [nucleotide binding]; other site 279238002177 salt bridge; other site 279238002178 sequence-specific DNA binding site [nucleotide binding]; other site 279238002179 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 279238002180 Domain of unknown function (DUF955); Region: DUF955; pfam06114 279238002181 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 279238002182 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 279238002183 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 279238002184 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 279238002185 beta-ketothiolase; Provisional; Region: PRK09051 279238002186 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 279238002187 dimer interface [polypeptide binding]; other site 279238002188 active site 279238002189 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 279238002190 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 279238002191 dimer interface [polypeptide binding]; other site 279238002192 substrate binding site [chemical binding]; other site 279238002193 metal binding site [ion binding]; metal-binding site 279238002194 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 279238002195 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 279238002196 active site 279238002197 substrate binding site [chemical binding]; other site 279238002198 coenzyme B12 binding site [chemical binding]; other site 279238002199 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 279238002200 B12 binding site [chemical binding]; other site 279238002201 cobalt ligand [ion binding]; other site 279238002202 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 279238002203 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 279238002204 homodimer interface [polypeptide binding]; other site 279238002205 substrate-cofactor binding pocket; other site 279238002206 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279238002207 catalytic residue [active] 279238002208 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 279238002209 GIY-YIG motif/motif A; other site 279238002210 putative active site [active] 279238002211 putative metal binding site [ion binding]; other site 279238002212 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 279238002213 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 279238002214 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 279238002215 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 279238002216 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 279238002217 carboxyltransferase (CT) interaction site; other site 279238002218 biotinylation site [posttranslational modification]; other site 279238002219 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 279238002220 FAD binding domain; Region: FAD_binding_4; pfam01565 279238002221 Cytochrome c2 [Energy production and conversion]; Region: COG3474 279238002222 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 279238002223 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 279238002224 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 279238002225 active site 279238002226 catalytic residues [active] 279238002227 acyl-CoA synthetase; Validated; Region: PRK09192 279238002228 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 279238002229 acyl-activating enzyme (AAE) consensus motif; other site 279238002230 active site 279238002231 RecX family; Region: RecX; pfam02631 279238002232 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 279238002233 NADH dehydrogenase; Validated; Region: PRK08183 279238002234 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; pfam09923 279238002235 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 279238002236 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 279238002237 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 279238002238 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 279238002239 AsnC family; Region: AsnC_trans_reg; pfam01037 279238002240 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 279238002241 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 279238002242 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 279238002243 putative homodimer interface [polypeptide binding]; other site 279238002244 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 279238002245 heterodimer interface [polypeptide binding]; other site 279238002246 homodimer interface [polypeptide binding]; other site 279238002247 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 279238002248 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 279238002249 23S rRNA interface [nucleotide binding]; other site 279238002250 L7/L12 interface [polypeptide binding]; other site 279238002251 putative thiostrepton binding site; other site 279238002252 L25 interface [polypeptide binding]; other site 279238002253 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 279238002254 mRNA/rRNA interface [nucleotide binding]; other site 279238002255 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 279238002256 active site 279238002257 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 279238002258 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 279238002259 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 279238002260 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 279238002261 putative MPT binding site; other site 279238002262 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 279238002263 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 279238002264 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 279238002265 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 279238002266 oligomer interface [polypeptide binding]; other site 279238002267 metal binding site [ion binding]; metal-binding site 279238002268 metal binding site [ion binding]; metal-binding site 279238002269 putative Cl binding site [ion binding]; other site 279238002270 basic sphincter; other site 279238002271 hydrophobic gate; other site 279238002272 periplasmic entrance; other site 279238002273 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 279238002274 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 279238002275 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 279238002276 M28 Zn-Peptidases; Region: M28_like_4; cd08015 279238002277 Peptidase family M28; Region: Peptidase_M28; pfam04389 279238002278 metal binding site [ion binding]; metal-binding site 279238002279 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 279238002280 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 279238002281 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 279238002282 Zn2+ binding site [ion binding]; other site 279238002283 Mg2+ binding site [ion binding]; other site 279238002284 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 279238002285 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 279238002286 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 279238002287 FeS/SAM binding site; other site 279238002288 Protein of unknown function (DUF1761); Region: DUF1761; pfam08570 279238002289 Ion channel; Region: Ion_trans_2; pfam07885 279238002290 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 279238002291 TrkA-N domain; Region: TrkA_N; pfam02254 279238002292 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 279238002293 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 279238002294 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 279238002295 Peptidase family M23; Region: Peptidase_M23; pfam01551 279238002296 seryl-tRNA synthetase; Provisional; Region: PRK05431 279238002297 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 279238002298 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 279238002299 dimer interface [polypeptide binding]; other site 279238002300 active site 279238002301 motif 1; other site 279238002302 motif 2; other site 279238002303 motif 3; other site 279238002304 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 279238002305 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 279238002306 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 279238002307 dimerization interface [polypeptide binding]; other site 279238002308 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 279238002309 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 279238002310 dimer interface [polypeptide binding]; other site 279238002311 putative CheW interface [polypeptide binding]; other site 279238002312 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 279238002313 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279238002314 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238002315 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 279238002316 dimerization interface [polypeptide binding]; other site 279238002317 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 279238002318 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 279238002319 tetrameric interface [polypeptide binding]; other site 279238002320 NAD binding site [chemical binding]; other site 279238002321 catalytic residues [active] 279238002322 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 279238002323 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 279238002324 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 279238002325 active site 279238002326 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 279238002327 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 279238002328 substrate binding site [chemical binding]; other site 279238002329 oxyanion hole (OAH) forming residues; other site 279238002330 trimer interface [polypeptide binding]; other site 279238002331 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 279238002332 enoyl-CoA hydratase; Provisional; Region: PRK05862 279238002333 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 279238002334 substrate binding site [chemical binding]; other site 279238002335 oxyanion hole (OAH) forming residues; other site 279238002336 trimer interface [polypeptide binding]; other site 279238002337 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 279238002338 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 279238002339 CHAP domain; Region: CHAP; pfam05257 279238002340 Surface antigen [General function prediction only]; Region: COG3942 279238002341 GTP-binding protein Der; Reviewed; Region: PRK00093 279238002342 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 279238002343 G1 box; other site 279238002344 GTP/Mg2+ binding site [chemical binding]; other site 279238002345 Switch I region; other site 279238002346 G2 box; other site 279238002347 Switch II region; other site 279238002348 G3 box; other site 279238002349 G4 box; other site 279238002350 G5 box; other site 279238002351 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 279238002352 G1 box; other site 279238002353 GTP/Mg2+ binding site [chemical binding]; other site 279238002354 Switch I region; other site 279238002355 G2 box; other site 279238002356 G3 box; other site 279238002357 Switch II region; other site 279238002358 G4 box; other site 279238002359 G5 box; other site 279238002360 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238002361 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 279238002362 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 279238002363 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 279238002364 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238002365 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 279238002366 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 279238002367 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 279238002368 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 279238002369 dimer interface [polypeptide binding]; other site 279238002370 active site 279238002371 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 279238002372 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 279238002373 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 279238002374 acyl-activating enzyme (AAE) consensus motif; other site 279238002375 acyl-activating enzyme (AAE) consensus motif; other site 279238002376 putative AMP binding site [chemical binding]; other site 279238002377 putative active site [active] 279238002378 putative CoA binding site [chemical binding]; other site 279238002379 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 279238002380 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 279238002381 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 279238002382 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 279238002383 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 279238002384 Beta-lactamase; Region: Beta-lactamase; pfam00144 279238002385 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 279238002386 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 279238002387 active site 2 [active] 279238002388 active site 1 [active] 279238002389 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 279238002390 L-fucose transporter; Provisional; Region: PRK10133; cl17665 279238002391 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279238002392 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238002393 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like_1; cd08470 279238002394 putative effector binding pocket; other site 279238002395 putative dimerization interface [polypeptide binding]; other site 279238002396 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 279238002397 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 279238002398 substrate binding site [chemical binding]; other site 279238002399 catalytic Zn binding site [ion binding]; other site 279238002400 NAD binding site [chemical binding]; other site 279238002401 structural Zn binding site [ion binding]; other site 279238002402 dimer interface [polypeptide binding]; other site 279238002403 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238002404 short chain dehydrogenase; Validated; Region: PRK07069 279238002405 NAD(P) binding site [chemical binding]; other site 279238002406 active site 279238002407 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 279238002408 ADP-ribose binding site [chemical binding]; other site 279238002409 dimer interface [polypeptide binding]; other site 279238002410 active site 279238002411 nudix motif; other site 279238002412 metal binding site [ion binding]; metal-binding site 279238002413 Repair protein; Region: Repair_PSII; cl01535 279238002414 Repair protein; Region: Repair_PSII; pfam04536 279238002415 LemA family; Region: LemA; cl00742 279238002416 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 279238002417 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 279238002418 Phosphate-induced protein 1 conserved region; Region: Phi_1; pfam04674 279238002419 succinylarginine dihydrolase; Provisional; Region: PRK13281 279238002420 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 279238002421 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 279238002422 hypothetical protein; Provisional; Region: PRK07338 279238002423 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 279238002424 metal binding site [ion binding]; metal-binding site 279238002425 dimer interface [polypeptide binding]; other site 279238002426 malate synthase G; Provisional; Region: PRK02999 279238002427 active site 279238002428 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 279238002429 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 279238002430 S-adenosylmethionine binding site [chemical binding]; other site 279238002431 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 279238002432 SurA N-terminal domain; Region: SurA_N; pfam09312 279238002433 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 279238002434 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 279238002435 OstA-like protein; Region: OstA; cl00844 279238002436 Organic solvent tolerance protein; Region: OstA_C; pfam04453 279238002437 multifunctional aminopeptidase A; Provisional; Region: PRK00913 279238002438 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 279238002439 interface (dimer of trimers) [polypeptide binding]; other site 279238002440 Substrate-binding/catalytic site; other site 279238002441 Zn-binding sites [ion binding]; other site 279238002442 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 279238002443 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 279238002444 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 279238002445 GIY-YIG motif/motif A; other site 279238002446 putative active site [active] 279238002447 putative metal binding site [ion binding]; other site 279238002448 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 279238002449 active site 279238002450 multimer interface [polypeptide binding]; other site 279238002451 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238002452 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 279238002453 N-terminal plug; other site 279238002454 ligand-binding site [chemical binding]; other site 279238002455 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 279238002456 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 279238002457 active site 279238002458 substrate binding site [chemical binding]; other site 279238002459 cosubstrate binding site; other site 279238002460 catalytic site [active] 279238002461 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 279238002462 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 279238002463 dimerization interface [polypeptide binding]; other site 279238002464 putative ATP binding site [chemical binding]; other site 279238002465 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 279238002466 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 279238002467 serine O-acetyltransferase; Region: cysE; TIGR01172 279238002468 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 279238002469 trimer interface [polypeptide binding]; other site 279238002470 active site 279238002471 substrate binding site [chemical binding]; other site 279238002472 CoA binding site [chemical binding]; other site 279238002473 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 279238002474 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 279238002475 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 279238002476 CoenzymeA binding site [chemical binding]; other site 279238002477 subunit interaction site [polypeptide binding]; other site 279238002478 PHB binding site; other site 279238002479 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 279238002480 CoenzymeA binding site [chemical binding]; other site 279238002481 subunit interaction site [polypeptide binding]; other site 279238002482 PHB binding site; other site 279238002483 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 279238002484 Protein of unknown function (DUF3089); Region: DUF3089; pfam11288 279238002485 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 279238002486 Domain of unknown function DUF20; Region: UPF0118; pfam01594 279238002487 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 279238002488 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 279238002489 Catalytic site [active] 279238002490 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 279238002491 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 279238002492 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 279238002493 active site 279238002494 hydrophilic channel; other site 279238002495 dimerization interface [polypeptide binding]; other site 279238002496 catalytic residues [active] 279238002497 active site lid [active] 279238002498 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 279238002499 active site 279238002500 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 279238002501 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 279238002502 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 279238002503 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 279238002504 Subunit I/III interface [polypeptide binding]; other site 279238002505 D-pathway; other site 279238002506 Subunit I/VIIc interface [polypeptide binding]; other site 279238002507 Subunit I/IV interface [polypeptide binding]; other site 279238002508 Subunit I/II interface [polypeptide binding]; other site 279238002509 Low-spin heme (heme a) binding site [chemical binding]; other site 279238002510 Subunit I/VIIa interface [polypeptide binding]; other site 279238002511 Subunit I/VIa interface [polypeptide binding]; other site 279238002512 Dimer interface; other site 279238002513 Putative water exit pathway; other site 279238002514 Binuclear center (heme a3/CuB) [ion binding]; other site 279238002515 K-pathway; other site 279238002516 Subunit I/Vb interface [polypeptide binding]; other site 279238002517 Putative proton exit pathway; other site 279238002518 Subunit I/VIb interface; other site 279238002519 Subunit I/VIc interface [polypeptide binding]; other site 279238002520 Electron transfer pathway; other site 279238002521 Subunit I/VIIIb interface [polypeptide binding]; other site 279238002522 Subunit I/VIIb interface [polypeptide binding]; other site 279238002523 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 279238002524 UbiA prenyltransferase family; Region: UbiA; pfam01040 279238002525 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; pfam04442 279238002526 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 279238002527 Subunit III/VIIa interface [polypeptide binding]; other site 279238002528 Phospholipid binding site [chemical binding]; other site 279238002529 Subunit I/III interface [polypeptide binding]; other site 279238002530 Subunit III/VIb interface [polypeptide binding]; other site 279238002531 Subunit III/VIa interface; other site 279238002532 Subunit III/Vb interface [polypeptide binding]; other site 279238002533 Protein of unknown function (DUF983); Region: DUF983; cl02211 279238002534 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 279238002535 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 279238002536 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 279238002537 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279238002538 catalytic residue [active] 279238002539 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 279238002540 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 279238002541 S-adenosylmethionine binding site [chemical binding]; other site 279238002542 Dihydroneopterin aldolase; Region: FolB; smart00905 279238002543 active site 279238002544 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238002545 short chain dehydrogenase; Provisional; Region: PRK09134 279238002546 NAD(P) binding site [chemical binding]; other site 279238002547 active site 279238002548 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 279238002549 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 279238002550 FeS/SAM binding site; other site 279238002551 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 279238002552 Ubiquitin-like proteins; Region: UBQ; cl00155 279238002553 charged pocket; other site 279238002554 hydrophobic patch; other site 279238002555 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 279238002556 MoaE homodimer interface [polypeptide binding]; other site 279238002557 MoaD interaction [polypeptide binding]; other site 279238002558 active site residues [active] 279238002559 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 279238002560 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 279238002561 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 279238002562 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279238002563 Coenzyme A binding pocket [chemical binding]; other site 279238002564 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 279238002565 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 279238002566 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238002567 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238002568 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 279238002569 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 279238002570 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 279238002571 active site 279238002572 substrate binding pocket [chemical binding]; other site 279238002573 dimer interface [polypeptide binding]; other site 279238002574 Predicted permeases [General function prediction only]; Region: RarD; COG2962 279238002575 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 279238002576 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 279238002577 NAD(P) binding site [chemical binding]; other site 279238002578 catalytic residues [active] 279238002579 hypothetical protein; Validated; Region: PRK00029 279238002580 Uncharacterized conserved protein [Function unknown]; Region: COG0397 279238002581 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 279238002582 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 279238002583 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 279238002584 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 279238002585 Trp docking motif [polypeptide binding]; other site 279238002586 active site 279238002587 PQQ-like domain; Region: PQQ_2; pfam13360 279238002588 PQQ-like domain; Region: PQQ_2; pfam13360 279238002589 Phospholipid methyltransferase; Region: PEMT; cl17370 279238002590 Uncharacterized conserved protein [Function unknown]; Region: COG1359 279238002591 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 279238002592 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 279238002593 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 279238002594 UbiA prenyltransferase family; Region: UbiA; pfam01040 279238002595 N-acetyltransferase; Region: Acetyltransf_2; cl00949 279238002596 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 279238002597 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 279238002598 active site 279238002599 metal binding site [ion binding]; metal-binding site 279238002600 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 279238002601 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 279238002602 DNA binding residues [nucleotide binding] 279238002603 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 279238002604 Walker A/P-loop; other site 279238002605 ATP binding site [chemical binding]; other site 279238002606 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 279238002607 ABC transporter signature motif; other site 279238002608 Walker B; other site 279238002609 D-loop; other site 279238002610 H-loop/switch region; other site 279238002611 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 279238002612 Thioredoxin; Region: Thioredoxin_4; pfam13462 279238002613 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 279238002614 GIY-YIG motif/motif A; other site 279238002615 putative active site [active] 279238002616 putative metal binding site [ion binding]; other site 279238002617 Thioredoxin; Region: Thioredoxin_4; pfam13462 279238002618 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 279238002619 Protein of unknown function (DUF721); Region: DUF721; pfam05258 279238002620 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 279238002621 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 279238002622 minor groove reading motif; other site 279238002623 helix-hairpin-helix signature motif; other site 279238002624 substrate binding pocket [chemical binding]; other site 279238002625 active site 279238002626 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 279238002627 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 279238002628 DNA binding and oxoG recognition site [nucleotide binding] 279238002629 Beta-lactamase; Region: Beta-lactamase; pfam00144 279238002630 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 279238002631 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 279238002632 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 279238002633 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 279238002634 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 279238002635 putative NADH binding site [chemical binding]; other site 279238002636 putative active site [active] 279238002637 nudix motif; other site 279238002638 putative metal binding site [ion binding]; other site 279238002639 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 279238002640 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 279238002641 catalytic residues [active] 279238002642 Protein of unknown function (DUF1489); Region: DUF1489; pfam07370 279238002643 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 279238002644 MgtE intracellular N domain; Region: MgtE_N; smart00924 279238002645 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 279238002646 Divalent cation transporter; Region: MgtE; pfam01769 279238002647 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 279238002648 active site 279238002649 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 279238002650 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 279238002651 active site 279238002652 HIGH motif; other site 279238002653 nucleotide binding site [chemical binding]; other site 279238002654 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 279238002655 active site 279238002656 KMSKS motif; other site 279238002657 NAD synthetase; Provisional; Region: PRK13981 279238002658 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 279238002659 multimer interface [polypeptide binding]; other site 279238002660 active site 279238002661 catalytic triad [active] 279238002662 protein interface 1 [polypeptide binding]; other site 279238002663 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 279238002664 homodimer interface [polypeptide binding]; other site 279238002665 NAD binding pocket [chemical binding]; other site 279238002666 ATP binding pocket [chemical binding]; other site 279238002667 Mg binding site [ion binding]; other site 279238002668 active-site loop [active] 279238002669 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 279238002670 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 279238002671 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 279238002672 active site 279238002673 SnoaL-like polyketide cyclase; Region: SnoaL; pfam07366 279238002674 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238002675 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238002676 Helix-turn-helix domain; Region: HTH_18; pfam12833 279238002677 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279238002678 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 279238002679 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 279238002680 active site 279238002681 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 279238002682 putative active site pocket [active] 279238002683 putative catalytic residue [active] 279238002684 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 279238002685 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 279238002686 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238002687 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 279238002688 dimerization interface [polypeptide binding]; other site 279238002689 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 279238002690 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 279238002691 Transporter associated domain; Region: CorC_HlyC; smart01091 279238002692 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 279238002693 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 279238002694 PhoH-like protein; Region: PhoH; pfam02562 279238002695 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 279238002696 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 279238002697 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 279238002698 FeS/SAM binding site; other site 279238002699 TRAM domain; Region: TRAM; cl01282 279238002700 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 279238002701 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 279238002702 putative acyl-acceptor binding pocket; other site 279238002703 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 279238002704 metal binding site 2 [ion binding]; metal-binding site 279238002705 putative DNA binding helix; other site 279238002706 metal binding site 1 [ion binding]; metal-binding site 279238002707 dimer interface [polypeptide binding]; other site 279238002708 structural Zn2+ binding site [ion binding]; other site 279238002709 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 279238002710 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 279238002711 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279238002712 Coenzyme A binding pocket [chemical binding]; other site 279238002713 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 279238002714 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 279238002715 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 279238002716 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 279238002717 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 279238002718 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 279238002719 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 279238002720 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 279238002721 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 279238002722 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 279238002723 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238002724 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238002725 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 279238002726 Phosphotransferase enzyme family; Region: APH; pfam01636 279238002727 putative active site [active] 279238002728 putative substrate binding site [chemical binding]; other site 279238002729 ATP binding site [chemical binding]; other site 279238002730 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 279238002731 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 279238002732 NAD binding site [chemical binding]; other site 279238002733 catalytic Zn binding site [ion binding]; other site 279238002734 substrate binding site [chemical binding]; other site 279238002735 structural Zn binding site [ion binding]; other site 279238002736 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 279238002737 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 279238002738 active site 279238002739 MFS/sugar transport protein; Region: MFS_2; pfam13347 279238002740 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 279238002741 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279238002742 classical (c) SDRs; Region: SDR_c; cd05233 279238002743 NAD(P) binding site [chemical binding]; other site 279238002744 active site 279238002745 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 279238002746 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 279238002747 active site 279238002748 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 279238002749 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 279238002750 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 279238002751 active site 279238002752 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 279238002753 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238002754 NAD(P) binding site [chemical binding]; other site 279238002755 active site 279238002756 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 279238002757 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 279238002758 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 279238002759 catalytic site [active] 279238002760 G-X2-G-X-G-K; other site 279238002761 Stringent starvation protein B; Region: SspB; pfam04386 279238002762 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 279238002763 putative active site pocket [active] 279238002764 4-fold oligomerization interface [polypeptide binding]; other site 279238002765 metal binding residues [ion binding]; metal-binding site 279238002766 3-fold/trimer interface [polypeptide binding]; other site 279238002767 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 279238002768 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 279238002769 putative active site [active] 279238002770 oxyanion strand; other site 279238002771 catalytic triad [active] 279238002772 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 279238002773 active site 279238002774 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 279238002775 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 279238002776 catalytic residues [active] 279238002777 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 279238002778 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 279238002779 substrate binding site [chemical binding]; other site 279238002780 glutamase interaction surface [polypeptide binding]; other site 279238002781 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 279238002782 metal binding site [ion binding]; metal-binding site 279238002783 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 279238002784 nucleotide binding site/active site [active] 279238002785 HIT family signature motif; other site 279238002786 catalytic residue [active] 279238002787 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 279238002788 active site 279238002789 TolQ protein; Region: tolQ; TIGR02796 279238002790 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 279238002791 TolR protein; Region: tolR; TIGR02801 279238002792 translocation protein TolB; Provisional; Region: tolB; PRK05137 279238002793 TolB amino-terminal domain; Region: TolB_N; pfam04052 279238002794 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 279238002795 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 279238002796 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 279238002797 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 279238002798 ligand binding site [chemical binding]; other site 279238002799 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 279238002800 HSP70 interaction site [polypeptide binding]; other site 279238002801 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 279238002802 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 279238002803 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 279238002804 active site 279238002805 NTP binding site [chemical binding]; other site 279238002806 metal binding triad [ion binding]; metal-binding site 279238002807 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 279238002808 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 279238002809 putative active site [active] 279238002810 putative CoA binding site [chemical binding]; other site 279238002811 nudix motif; other site 279238002812 metal binding site [ion binding]; metal-binding site 279238002813 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 279238002814 Predicted acetyltransferase [General function prediction only]; Region: COG3153 279238002815 Coenzyme A binding pocket [chemical binding]; other site 279238002816 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 279238002817 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 279238002818 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 279238002819 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 279238002820 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 279238002821 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 279238002822 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 279238002823 non-specific DNA binding site [nucleotide binding]; other site 279238002824 salt bridge; other site 279238002825 sequence-specific DNA binding site [nucleotide binding]; other site 279238002826 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 279238002827 Domain of unknown function (DUF955); Region: DUF955; pfam06114 279238002828 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 279238002829 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 279238002830 tetramer interface [polypeptide binding]; other site 279238002831 active site 279238002832 Mg2+/Mn2+ binding site [ion binding]; other site 279238002833 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 279238002834 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 279238002835 PAS domain; Region: PAS_9; pfam13426 279238002836 putative active site [active] 279238002837 heme pocket [chemical binding]; other site 279238002838 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 279238002839 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 279238002840 metal binding site [ion binding]; metal-binding site 279238002841 active site 279238002842 I-site; other site 279238002843 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 279238002844 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 279238002845 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 279238002846 putative active site [active] 279238002847 catalytic triad [active] 279238002848 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 279238002849 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238002850 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238002851 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 279238002852 HlyD family secretion protein; Region: HlyD_3; pfam13437 279238002853 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 279238002854 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 279238002855 Walker A/P-loop; other site 279238002856 ATP binding site [chemical binding]; other site 279238002857 Q-loop/lid; other site 279238002858 ABC transporter signature motif; other site 279238002859 Walker B; other site 279238002860 D-loop; other site 279238002861 H-loop/switch region; other site 279238002862 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 279238002863 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 279238002864 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 279238002865 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 279238002866 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 279238002867 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 279238002868 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 279238002869 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 279238002870 ATP binding site [chemical binding]; other site 279238002871 active site 279238002872 substrate binding site [chemical binding]; other site 279238002873 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 279238002874 Predicted amidohydrolase [General function prediction only]; Region: COG0388 279238002875 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 279238002876 putative active site [active] 279238002877 catalytic triad [active] 279238002878 putative dimer interface [polypeptide binding]; other site 279238002879 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 279238002880 tetramer interface [polypeptide binding]; other site 279238002881 TPP-binding site [chemical binding]; other site 279238002882 heterodimer interface [polypeptide binding]; other site 279238002883 phosphorylation loop region [posttranslational modification] 279238002884 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 279238002885 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 279238002886 PYR/PP interface [polypeptide binding]; other site 279238002887 dimer interface [polypeptide binding]; other site 279238002888 TPP binding site [chemical binding]; other site 279238002889 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 279238002890 Acyl transferase domain; Region: Acyl_transf_1; cl08282 279238002891 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 279238002892 Low molecular weight phosphatase family; Region: LMWPc; cd00115 279238002893 active site 279238002894 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 279238002895 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 279238002896 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 279238002897 rhamnose-proton symporter; Provisional; Region: PRK13499 279238002898 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 279238002899 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 279238002900 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 279238002901 phosphate binding site [ion binding]; other site 279238002902 Novosphingobium aromaticivorans carbohydrate kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_NaCK_like; cd07772 279238002903 N- and C-terminal domain interface [polypeptide binding]; other site 279238002904 putative active site [active] 279238002905 putative MgATP binding site [chemical binding]; other site 279238002906 putative catalytic site [active] 279238002907 metal binding site [ion binding]; metal-binding site 279238002908 putative carbohydrate binding site [chemical binding]; other site 279238002909 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238002910 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 279238002911 N-terminal plug; other site 279238002912 ligand-binding site [chemical binding]; other site 279238002913 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 279238002914 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 279238002915 active site 279238002916 Domain of unknown function (DUF329); Region: DUF329; cl01144 279238002917 Maf-like protein; Region: Maf; pfam02545 279238002918 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 279238002919 active site 279238002920 dimer interface [polypeptide binding]; other site 279238002921 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 279238002922 rRNA binding site [nucleotide binding]; other site 279238002923 predicted 30S ribosome binding site; other site 279238002924 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 279238002925 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 279238002926 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 279238002927 GIY-YIG motif/motif A; other site 279238002928 active site 279238002929 catalytic site [active] 279238002930 putative DNA binding site [nucleotide binding]; other site 279238002931 metal binding site [ion binding]; metal-binding site 279238002932 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 279238002933 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 279238002934 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 279238002935 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 279238002936 catalytic residue [active] 279238002937 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 279238002938 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 279238002939 active site 279238002940 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 279238002941 catalytic triad [active] 279238002942 dimer interface [polypeptide binding]; other site 279238002943 Cupin-like domain; Region: Cupin_8; pfam13621 279238002944 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 279238002945 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 279238002946 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 279238002947 thiamine monophosphate kinase; Provisional; Region: PRK05731 279238002948 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 279238002949 ATP binding site [chemical binding]; other site 279238002950 dimerization interface [polypeptide binding]; other site 279238002951 acetyl-CoA acetyltransferase; Provisional; Region: PRK06504 279238002952 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 279238002953 dimer interface [polypeptide binding]; other site 279238002954 active site 279238002955 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238002956 NAD(P) binding site [chemical binding]; other site 279238002957 active site 279238002958 enoyl-CoA hydratase; Provisional; Region: PRK08260 279238002959 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 279238002960 substrate binding site [chemical binding]; other site 279238002961 oxyanion hole (OAH) forming residues; other site 279238002962 trimer interface [polypeptide binding]; other site 279238002963 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238002964 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 279238002965 MarR family; Region: MarR_2; pfam12802 279238002966 MarR family; Region: MarR_2; cl17246 279238002967 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 279238002968 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 279238002969 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 279238002970 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 279238002971 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 279238002972 AAA domain; Region: AAA_31; pfam13614 279238002973 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 279238002974 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 279238002975 Type IV pili component [Cell motility and secretion]; Region: COG5461 279238002976 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 279238002977 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 279238002978 BON domain; Region: BON; pfam04972 279238002979 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 279238002980 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 279238002981 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 279238002982 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 279238002983 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 279238002984 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 279238002985 TAP-like protein; Region: Abhydrolase_4; pfam08386 279238002986 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 279238002987 hydroxyglutarate oxidase; Provisional; Region: PRK11728 279238002988 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 279238002989 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 279238002990 RNA/DNA hybrid binding site [nucleotide binding]; other site 279238002991 active site 279238002992 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 279238002993 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 279238002994 putative active site [active] 279238002995 putative substrate binding site [chemical binding]; other site 279238002996 ATP binding site [chemical binding]; other site 279238002997 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 279238002998 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 279238002999 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 279238003000 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 279238003001 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 279238003002 active site 279238003003 HIGH motif; other site 279238003004 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 279238003005 KMSK motif region; other site 279238003006 tRNA binding surface [nucleotide binding]; other site 279238003007 DALR anticodon binding domain; Region: DALR_1; smart00836 279238003008 anticodon binding site; other site 279238003009 type III secretion system needle complex protein PrgH; Provisional; Region: PRK15327; cl12363 279238003010 Sporulation related domain; Region: SPOR; pfam05036 279238003011 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 279238003012 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 279238003013 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 279238003014 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 279238003015 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 279238003016 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 279238003017 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 279238003018 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 279238003019 Amidohydrolase family; Region: Amidohydro_3; pfam07969 279238003020 active site 279238003021 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 279238003022 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 279238003023 threonine dehydratase; Provisional; Region: PRK07334 279238003024 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 279238003025 tetramer interface [polypeptide binding]; other site 279238003026 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279238003027 catalytic residue [active] 279238003028 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 279238003029 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 279238003030 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 279238003031 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 279238003032 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 279238003033 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 279238003034 Surface antigen; Region: Bac_surface_Ag; pfam01103 279238003035 Family of unknown function (DUF490); Region: DUF490; pfam04357 279238003036 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 279238003037 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 279238003038 NAD binding site [chemical binding]; other site 279238003039 catalytic residues [active] 279238003040 CHASE4 domain; Region: CHASE4; cl01308 279238003041 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 279238003042 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 279238003043 metal binding site [ion binding]; metal-binding site 279238003044 active site 279238003045 I-site; other site 279238003046 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 279238003047 CHAP domain; Region: CHAP; cl17642 279238003048 glutamine synthetase; Provisional; Region: glnA; PRK09469 279238003049 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 279238003050 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 279238003051 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 279238003052 Nitrogen regulatory protein P-II; Region: P-II; smart00938 279238003053 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 279238003054 active site 279238003055 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 279238003056 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 279238003057 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 279238003058 interface (dimer of trimers) [polypeptide binding]; other site 279238003059 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 279238003060 Substrate-binding/catalytic site; other site 279238003061 Zn-binding sites [ion binding]; other site 279238003062 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 279238003063 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 279238003064 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 279238003065 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 279238003066 catalytic loop [active] 279238003067 iron binding site [ion binding]; other site 279238003068 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 279238003069 endonuclease III; Region: ENDO3c; smart00478 279238003070 minor groove reading motif; other site 279238003071 helix-hairpin-helix signature motif; other site 279238003072 active site 279238003073 short chain dehydrogenase; Provisional; Region: PRK08267 279238003074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238003075 NAD(P) binding site [chemical binding]; other site 279238003076 active site 279238003077 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 279238003078 aromatic arch; other site 279238003079 DCoH dimer interaction site [polypeptide binding]; other site 279238003080 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 279238003081 DCoH tetramer interaction site [polypeptide binding]; other site 279238003082 substrate binding site [chemical binding]; other site 279238003083 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 279238003084 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 279238003085 Walker A/P-loop; other site 279238003086 ATP binding site [chemical binding]; other site 279238003087 Q-loop/lid; other site 279238003088 ABC transporter signature motif; other site 279238003089 Walker B; other site 279238003090 D-loop; other site 279238003091 H-loop/switch region; other site 279238003092 CcmB protein; Region: CcmB; cl17444 279238003093 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 279238003094 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 279238003095 dimer interface [polypeptide binding]; other site 279238003096 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279238003097 catalytic residue [active] 279238003098 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 279238003099 cell division protein MraZ; Reviewed; Region: PRK00326 279238003100 MraW methylase family; Region: Methyltransf_5; cl17771 279238003101 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 279238003102 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 279238003103 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 279238003104 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 279238003105 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 279238003106 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 279238003107 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 279238003108 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 279238003109 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 279238003110 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 279238003111 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 279238003112 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 279238003113 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 279238003114 Mg++ binding site [ion binding]; other site 279238003115 putative catalytic motif [active] 279238003116 putative substrate binding site [chemical binding]; other site 279238003117 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 279238003118 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 279238003119 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 279238003120 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 279238003121 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 279238003122 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 279238003123 active site 279238003124 homodimer interface [polypeptide binding]; other site 279238003125 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 279238003126 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 279238003127 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 279238003128 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 279238003129 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 279238003130 FAD binding domain; Region: FAD_binding_4; pfam01565 279238003131 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 279238003132 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 279238003133 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 279238003134 ATP-grasp domain; Region: ATP-grasp_4; cl17255 279238003135 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 279238003136 Cell division protein FtsQ; Region: FtsQ; pfam03799 279238003137 cell division protein FtsA; Region: ftsA; TIGR01174 279238003138 Cell division protein FtsA; Region: FtsA; smart00842 279238003139 Cell division protein FtsA; Region: FtsA; pfam14450 279238003140 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 279238003141 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 279238003142 nucleotide binding site [chemical binding]; other site 279238003143 SulA interaction site; other site 279238003144 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 279238003145 binding surface 279238003146 TPR motif; other site 279238003147 Sporulation related domain; Region: SPOR; pfam05036 279238003148 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 279238003149 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 279238003150 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 279238003151 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 279238003152 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 279238003153 GTPase CgtA; Reviewed; Region: obgE; PRK12299 279238003154 GTP1/OBG; Region: GTP1_OBG; pfam01018 279238003155 Obg GTPase; Region: Obg; cd01898 279238003156 G1 box; other site 279238003157 GTP/Mg2+ binding site [chemical binding]; other site 279238003158 Switch I region; other site 279238003159 G2 box; other site 279238003160 G3 box; other site 279238003161 Switch II region; other site 279238003162 G4 box; other site 279238003163 G5 box; other site 279238003164 gamma-glutamyl kinase; Provisional; Region: PRK05429 279238003165 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 279238003166 nucleotide binding site [chemical binding]; other site 279238003167 homotetrameric interface [polypeptide binding]; other site 279238003168 putative phosphate binding site [ion binding]; other site 279238003169 putative allosteric binding site; other site 279238003170 PUA domain; Region: PUA; pfam01472 279238003171 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238003172 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 279238003173 NAD(P) binding site [chemical binding]; other site 279238003174 active site 279238003175 Protein of unknown function (DUF805); Region: DUF805; pfam05656 279238003176 Protein of unknown function (DUF805); Region: DUF805; pfam05656 279238003177 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 279238003178 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 279238003179 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 279238003180 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 279238003181 Walker A/P-loop; other site 279238003182 ATP binding site [chemical binding]; other site 279238003183 Q-loop/lid; other site 279238003184 ABC transporter signature motif; other site 279238003185 Walker B; other site 279238003186 D-loop; other site 279238003187 H-loop/switch region; other site 279238003188 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 279238003189 active site 279238003190 catalytic triad [active] 279238003191 oxyanion hole [active] 279238003192 switch loop; other site 279238003193 recombination protein F; Reviewed; Region: recF; PRK00064 279238003194 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 279238003195 Walker A/P-loop; other site 279238003196 ATP binding site [chemical binding]; other site 279238003197 Q-loop/lid; other site 279238003198 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 279238003199 ABC transporter signature motif; other site 279238003200 Walker B; other site 279238003201 D-loop; other site 279238003202 H-loop/switch region; other site 279238003203 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 279238003204 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 279238003205 Walker A motif; other site 279238003206 ATP binding site [chemical binding]; other site 279238003207 Walker B motif; other site 279238003208 arginine finger; other site 279238003209 phage shock protein A; Region: phageshock_pspA; TIGR02977 279238003210 Phage shock protein B; Region: PspB; pfam06667 279238003211 phage shock protein C; Region: phageshock_pspC; TIGR02978 279238003212 PspC domain; Region: PspC; pfam04024 279238003213 phage shock protein C; Region: phageshock_pspC; TIGR02978 279238003214 Fe-S metabolism associated domain; Region: SufE; cl00951 279238003215 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 279238003216 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 279238003217 beta-carotene hydroxylase; Region: PLN02601 279238003218 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 279238003219 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 279238003220 substrate binding site [chemical binding]; other site 279238003221 ligand binding site [chemical binding]; other site 279238003222 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 279238003223 putative active site [active] 279238003224 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 279238003225 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 279238003226 substrate binding site [chemical binding]; other site 279238003227 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 279238003228 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 279238003229 NAD(P) binding site [chemical binding]; other site 279238003230 Predicted membrane protein [Function unknown]; Region: COG2860 279238003231 UPF0126 domain; Region: UPF0126; pfam03458 279238003232 UPF0126 domain; Region: UPF0126; pfam03458 279238003233 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 279238003234 FMN binding site [chemical binding]; other site 279238003235 substrate binding site [chemical binding]; other site 279238003236 putative catalytic residue [active] 279238003237 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 279238003238 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 279238003239 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 279238003240 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 279238003241 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 279238003242 E3 interaction surface; other site 279238003243 lipoyl attachment site [posttranslational modification]; other site 279238003244 e3 binding domain; Region: E3_binding; pfam02817 279238003245 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 279238003246 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 279238003247 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 279238003248 TPP-binding site [chemical binding]; other site 279238003249 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 279238003250 dimer interface [polypeptide binding]; other site 279238003251 PYR/PP interface [polypeptide binding]; other site 279238003252 TPP binding site [chemical binding]; other site 279238003253 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 279238003254 CoA binding domain; Region: CoA_binding; smart00881 279238003255 CoA-ligase; Region: Ligase_CoA; pfam00549 279238003256 malate dehydrogenase; Reviewed; Region: PRK06223 279238003257 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 279238003258 NAD(P) binding site [chemical binding]; other site 279238003259 dimer interface [polypeptide binding]; other site 279238003260 tetramer (dimer of dimers) interface [polypeptide binding]; other site 279238003261 substrate binding site [chemical binding]; other site 279238003262 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 279238003263 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 279238003264 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 279238003265 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 279238003266 N-terminal plug; other site 279238003267 ligand-binding site [chemical binding]; other site 279238003268 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 279238003269 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; cd00636 279238003270 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 279238003271 intersubunit interface [polypeptide binding]; other site 279238003272 intersubunit interface [polypeptide binding]; other site 279238003273 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 279238003274 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 279238003275 ABC-ATPase subunit interface; other site 279238003276 dimer interface [polypeptide binding]; other site 279238003277 putative PBP binding regions; other site 279238003278 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 279238003279 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 279238003280 Walker A/P-loop; other site 279238003281 ATP binding site [chemical binding]; other site 279238003282 Q-loop/lid; other site 279238003283 ABC transporter signature motif; other site 279238003284 Walker B; other site 279238003285 D-loop; other site 279238003286 H-loop/switch region; other site 279238003287 Protein of unknown function (DUF560); Region: DUF560; pfam04575 279238003288 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 279238003289 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 279238003290 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 279238003291 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 279238003292 A domain in the BMP inhibitor chordin and in microbial proteins; Region: CHRD; smart00754 279238003293 argininosuccinate synthase; Provisional; Region: PRK13820 279238003294 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 279238003295 ANP binding site [chemical binding]; other site 279238003296 Substrate Binding Site II [chemical binding]; other site 279238003297 Substrate Binding Site I [chemical binding]; other site 279238003298 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 279238003299 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 279238003300 [2Fe-2S] cluster binding site [ion binding]; other site 279238003301 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_3; cd08887 279238003302 putative alpha subunit interface [polypeptide binding]; other site 279238003303 putative active site [active] 279238003304 putative substrate binding site [chemical binding]; other site 279238003305 Fe binding site [ion binding]; other site 279238003306 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 279238003307 Pseudomonas putida Aldehyde dehydrogenase AlkH-like; Region: ALDH_AlkH-like; cd07134 279238003308 NAD(P) binding site [chemical binding]; other site 279238003309 catalytic residues [active] 279238003310 phosphoglycolate phosphatase; Provisional; Region: PRK13222 279238003311 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 279238003312 motif II; other site 279238003313 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 279238003314 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 279238003315 Substrate binding site; other site 279238003316 Mg++ binding site; other site 279238003317 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 279238003318 active site 279238003319 substrate binding site [chemical binding]; other site 279238003320 CoA binding site [chemical binding]; other site 279238003321 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 279238003322 oligomeric interface; other site 279238003323 putative active site [active] 279238003324 homodimer interface [polypeptide binding]; other site 279238003325 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 279238003326 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 279238003327 glutaminase active site [active] 279238003328 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 279238003329 dimer interface [polypeptide binding]; other site 279238003330 active site 279238003331 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 279238003332 dimer interface [polypeptide binding]; other site 279238003333 active site 279238003334 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 279238003335 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 279238003336 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 279238003337 helix_turn_helix, Arsenical Resistance Operon Repressor; Region: HTH_ARSR; smart00418 279238003338 putative DNA binding site [nucleotide binding]; other site 279238003339 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 279238003340 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 279238003341 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 279238003342 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 279238003343 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238003344 putative substrate translocation pore; other site 279238003345 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 279238003346 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 279238003347 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 279238003348 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 279238003349 acyl-activating enzyme (AAE) consensus motif; other site 279238003350 acyl-activating enzyme (AAE) consensus motif; other site 279238003351 putative AMP binding site [chemical binding]; other site 279238003352 putative active site [active] 279238003353 putative CoA binding site [chemical binding]; other site 279238003354 Domain of unknown function (DUF4402); Region: DUF4402; pfam14352 279238003355 Domain of unknown function (DUF4402); Region: DUF4402; pfam14352 279238003356 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 279238003357 IHF dimer interface [polypeptide binding]; other site 279238003358 IHF - DNA interface [nucleotide binding]; other site 279238003359 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 279238003360 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 279238003361 HlyD family secretion protein; Region: HlyD_3; pfam13437 279238003362 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 279238003363 Protein export membrane protein; Region: SecD_SecF; cl14618 279238003364 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 279238003365 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 279238003366 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 279238003367 active site 279238003368 acetyl-CoA acetyltransferase; Provisional; Region: PRK06205 279238003369 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 279238003370 dimer interface [polypeptide binding]; other site 279238003371 active site 279238003372 mesaconyl-CoA isomerase; Region: mesacon_CoA_iso; TIGR04253 279238003373 CoA-transferase family III; Region: CoA_transf_3; pfam02515 279238003374 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 279238003375 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 279238003376 active site 279238003377 short chain dehydrogenase; Provisional; Region: PRK07791 279238003378 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238003379 NAD(P) binding site [chemical binding]; other site 279238003380 active site 279238003381 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 279238003382 Transcriptional regulator [Transcription]; Region: IclR; COG1414 279238003383 Bacterial transcriptional regulator; Region: IclR; pfam01614 279238003384 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279238003385 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238003386 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 279238003387 putative substrate binding pocket [chemical binding]; other site 279238003388 putative dimerization interface [polypeptide binding]; other site 279238003389 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 279238003390 CoenzymeA binding site [chemical binding]; other site 279238003391 subunit interaction site [polypeptide binding]; other site 279238003392 PHB binding site; other site 279238003393 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 279238003394 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 279238003395 GTP cyclohydrolase I; Provisional; Region: PLN03044 279238003396 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 279238003397 active site 279238003398 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 279238003399 PAS domain; Region: PAS_9; pfam13426 279238003400 putative active site [active] 279238003401 heme pocket [chemical binding]; other site 279238003402 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 279238003403 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 279238003404 DNA binding residues [nucleotide binding] 279238003405 dimerization interface [polypeptide binding]; other site 279238003406 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 279238003407 HWE histidine kinase; Region: HWE_HK; smart00911 279238003408 The A subunit of Uncharacterized proteins with similarity to Protocatechuate 4,5-dioxygenase (LigAB); Region: LigA_like_1; cd07925 279238003409 putative dimer interface [polypeptide binding]; other site 279238003410 putative tetramer interface [polypeptide binding]; other site 279238003411 putative active site [active] 279238003412 The B subunit of unknown Class III extradiol dioxygenases with similarity to Protocatechuate 4,5-dioxygenase; Region: PCA_45_Doxase_B_like_1; cd07949 279238003413 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 279238003414 putative active site [active] 279238003415 Fe(II) binding site [ion binding]; other site 279238003416 putative dimer interface [polypeptide binding]; other site 279238003417 putative tetramer interface [polypeptide binding]; other site 279238003418 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 279238003419 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 279238003420 active site 279238003421 phosphorylation site [posttranslational modification] 279238003422 intermolecular recognition site; other site 279238003423 dimerization interface [polypeptide binding]; other site 279238003424 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 279238003425 DNA binding residues [nucleotide binding] 279238003426 dimerization interface [polypeptide binding]; other site 279238003427 Histidine kinase; Region: HisKA_3; pfam07730 279238003428 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 279238003429 ATP binding site [chemical binding]; other site 279238003430 Mg2+ binding site [ion binding]; other site 279238003431 G-X-G motif; other site 279238003432 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 279238003433 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 279238003434 DNA binding residues [nucleotide binding] 279238003435 dimerization interface [polypeptide binding]; other site 279238003436 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 279238003437 S17 interaction site [polypeptide binding]; other site 279238003438 S8 interaction site; other site 279238003439 16S rRNA interaction site [nucleotide binding]; other site 279238003440 streptomycin interaction site [chemical binding]; other site 279238003441 23S rRNA interaction site [nucleotide binding]; other site 279238003442 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 279238003443 30S ribosomal protein S7; Validated; Region: PRK05302 279238003444 elongation factor G; Reviewed; Region: PRK00007 279238003445 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 279238003446 G1 box; other site 279238003447 putative GEF interaction site [polypeptide binding]; other site 279238003448 GTP/Mg2+ binding site [chemical binding]; other site 279238003449 Switch I region; other site 279238003450 G2 box; other site 279238003451 G3 box; other site 279238003452 Switch II region; other site 279238003453 G4 box; other site 279238003454 G5 box; other site 279238003455 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 279238003456 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 279238003457 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 279238003458 elongation factor Tu; Reviewed; Region: PRK00049 279238003459 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 279238003460 G1 box; other site 279238003461 GEF interaction site [polypeptide binding]; other site 279238003462 GTP/Mg2+ binding site [chemical binding]; other site 279238003463 Switch I region; other site 279238003464 G2 box; other site 279238003465 G3 box; other site 279238003466 Switch II region; other site 279238003467 G4 box; other site 279238003468 G5 box; other site 279238003469 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 279238003470 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 279238003471 Antibiotic Binding Site [chemical binding]; other site 279238003472 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 279238003473 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 279238003474 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 279238003475 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 279238003476 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 279238003477 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 279238003478 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 279238003479 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 279238003480 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 279238003481 putative translocon binding site; other site 279238003482 protein-rRNA interface [nucleotide binding]; other site 279238003483 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 279238003484 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 279238003485 G-X-X-G motif; other site 279238003486 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 279238003487 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 279238003488 23S rRNA interface [nucleotide binding]; other site 279238003489 5S rRNA interface [nucleotide binding]; other site 279238003490 putative antibiotic binding site [chemical binding]; other site 279238003491 L25 interface [polypeptide binding]; other site 279238003492 L27 interface [polypeptide binding]; other site 279238003493 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 279238003494 putative translocon interaction site; other site 279238003495 23S rRNA interface [nucleotide binding]; other site 279238003496 signal recognition particle (SRP54) interaction site; other site 279238003497 L23 interface [polypeptide binding]; other site 279238003498 trigger factor interaction site; other site 279238003499 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 279238003500 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 279238003501 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 279238003502 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 279238003503 RNA binding site [nucleotide binding]; other site 279238003504 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 279238003505 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 279238003506 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 279238003507 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 279238003508 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 279238003509 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 279238003510 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 279238003511 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 279238003512 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 279238003513 23S rRNA interface [nucleotide binding]; other site 279238003514 5S rRNA interface [nucleotide binding]; other site 279238003515 L27 interface [polypeptide binding]; other site 279238003516 L5 interface [polypeptide binding]; other site 279238003517 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 279238003518 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 279238003519 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 279238003520 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 279238003521 23S rRNA binding site [nucleotide binding]; other site 279238003522 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 279238003523 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 279238003524 SecY translocase; Region: SecY; pfam00344 279238003525 adenylate kinase; Reviewed; Region: adk; PRK00279 279238003526 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 279238003527 AMP-binding site [chemical binding]; other site 279238003528 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 279238003529 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 279238003530 hydrophobic ligand binding site; other site 279238003531 glutamate dehydrogenase; Provisional; Region: PRK09414 279238003532 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 279238003533 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 279238003534 NAD(P) binding site [chemical binding]; other site 279238003535 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 279238003536 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 279238003537 DNA binding site [nucleotide binding] 279238003538 recombinase A; Provisional; Region: recA; PRK09354 279238003539 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 279238003540 hexamer interface [polypeptide binding]; other site 279238003541 Walker A motif; other site 279238003542 ATP binding site [chemical binding]; other site 279238003543 Walker B motif; other site 279238003544 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 279238003545 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 279238003546 putative C-terminal domain interface [polypeptide binding]; other site 279238003547 putative GSH binding site (G-site) [chemical binding]; other site 279238003548 putative dimer interface [polypeptide binding]; other site 279238003549 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 279238003550 N-terminal domain interface [polypeptide binding]; other site 279238003551 dimer interface [polypeptide binding]; other site 279238003552 substrate binding pocket (H-site) [chemical binding]; other site 279238003553 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 279238003554 elongation factor G; Reviewed; Region: PRK12740 279238003555 G1 box; other site 279238003556 putative GEF interaction site [polypeptide binding]; other site 279238003557 GTP/Mg2+ binding site [chemical binding]; other site 279238003558 Switch I region; other site 279238003559 G2 box; other site 279238003560 G3 box; other site 279238003561 Switch II region; other site 279238003562 G4 box; other site 279238003563 G5 box; other site 279238003564 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 279238003565 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 279238003566 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 279238003567 Methyltransferase domain; Region: Methyltransf_31; pfam13847 279238003568 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 279238003569 S-adenosylmethionine binding site [chemical binding]; other site 279238003570 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 279238003571 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 279238003572 motif 1; other site 279238003573 active site 279238003574 motif 2; other site 279238003575 motif 3; other site 279238003576 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 279238003577 DHHA1 domain; Region: DHHA1; pfam02272 279238003578 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 279238003579 TrkA-N domain; Region: TrkA_N; pfam02254 279238003580 isocitrate dehydrogenase; Validated; Region: PRK08299 279238003581 enoyl-CoA hydratase; Provisional; Region: PRK08252 279238003582 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 279238003583 substrate binding site [chemical binding]; other site 279238003584 oxyanion hole (OAH) forming residues; other site 279238003585 trimer interface [polypeptide binding]; other site 279238003586 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 279238003587 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 279238003588 Ligand binding site; other site 279238003589 oligomer interface; other site 279238003590 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 279238003591 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 279238003592 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 279238003593 Response regulator receiver domain; Region: Response_reg; pfam00072 279238003594 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 279238003595 active site 279238003596 phosphorylation site [posttranslational modification] 279238003597 intermolecular recognition site; other site 279238003598 dimerization interface [polypeptide binding]; other site 279238003599 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 279238003600 SapC; Region: SapC; pfam07277 279238003601 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 279238003602 FAD binding domain; Region: FAD_binding_4; pfam01565 279238003603 helicase 45; Provisional; Region: PTZ00424 279238003604 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 279238003605 ATP binding site [chemical binding]; other site 279238003606 Mg++ binding site [ion binding]; other site 279238003607 motif III; other site 279238003608 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 279238003609 nucleotide binding region [chemical binding]; other site 279238003610 ATP-binding site [chemical binding]; other site 279238003611 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 279238003612 Family description; Region: UvrD_C_2; pfam13538 279238003613 metabolite-proton symporter; Region: 2A0106; TIGR00883 279238003614 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 279238003615 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 279238003616 S-adenosylmethionine binding site [chemical binding]; other site 279238003617 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 279238003618 RNA binding surface [nucleotide binding]; other site 279238003619 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 279238003620 pseudouridine synthase; Region: TIGR00093 279238003621 probable active site [active] 279238003622 muropeptide transporter; Validated; Region: ampG; cl17669 279238003623 muropeptide transporter; Reviewed; Region: ampG; PRK11902 279238003624 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 279238003625 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 279238003626 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 279238003627 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 279238003628 substrate binding site [chemical binding]; other site 279238003629 active site 279238003630 catalytic residues [active] 279238003631 heterodimer interface [polypeptide binding]; other site 279238003632 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 279238003633 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 279238003634 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279238003635 catalytic residue [active] 279238003636 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 279238003637 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 279238003638 active site 279238003639 Uncharacterized conserved protein [Function unknown]; Region: COG2968 279238003640 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 279238003641 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 279238003642 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279238003643 Coenzyme A binding pocket [chemical binding]; other site 279238003644 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 279238003645 active site 279238003646 dimer interface [polypeptide binding]; other site 279238003647 adenylosuccinate lyase; Provisional; Region: PRK07492 279238003648 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 279238003649 tetramer interface [polypeptide binding]; other site 279238003650 active site 279238003651 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 279238003652 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 279238003653 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 279238003654 hypothetical protein; Reviewed; Region: PRK00024 279238003655 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 279238003656 MPN+ (JAMM) motif; other site 279238003657 Zinc-binding site [ion binding]; other site 279238003658 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 279238003659 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 279238003660 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 279238003661 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 279238003662 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 279238003663 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 279238003664 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 279238003665 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 279238003666 Transcriptional regulators [Transcription]; Region: PurR; COG1609 279238003667 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 279238003668 DNA binding site [nucleotide binding] 279238003669 domain linker motif; other site 279238003670 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 279238003671 putative dimerization interface [polypeptide binding]; other site 279238003672 putative ligand binding site [chemical binding]; other site 279238003673 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 279238003674 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 279238003675 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 279238003676 RNA binding site [nucleotide binding]; other site 279238003677 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 279238003678 RNA binding site [nucleotide binding]; other site 279238003679 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 279238003680 RNA binding site [nucleotide binding]; other site 279238003681 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 279238003682 RNA binding site [nucleotide binding]; other site 279238003683 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 279238003684 RNA binding site [nucleotide binding]; other site 279238003685 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 279238003686 RNA binding site [nucleotide binding]; other site 279238003687 cytidylate kinase; Provisional; Region: cmk; PRK00023 279238003688 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 279238003689 CMP-binding site; other site 279238003690 The sites determining sugar specificity; other site 279238003691 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 279238003692 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 279238003693 hinge; other site 279238003694 active site 279238003695 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 279238003696 TIGR02300 family protein; Region: FYDLN_acid 279238003697 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 279238003698 active site 279238003699 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 279238003700 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 279238003701 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 279238003702 EVE domain; Region: EVE; pfam01878 279238003703 CsbD-like; Region: CsbD; pfam05532 279238003704 lysophospholipid transporter LplT; Provisional; Region: PRK11195 279238003705 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 279238003706 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 279238003707 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238003708 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 279238003709 dimerization interface [polypeptide binding]; other site 279238003710 ribonuclease D; Region: rnd; TIGR01388 279238003711 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 279238003712 catalytic site [active] 279238003713 putative active site [active] 279238003714 putative substrate binding site [chemical binding]; other site 279238003715 HRDC domain; Region: HRDC; pfam00570 279238003716 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 279238003717 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 279238003718 dimer interface [polypeptide binding]; other site 279238003719 anticodon binding site; other site 279238003720 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 279238003721 homodimer interface [polypeptide binding]; other site 279238003722 motif 1; other site 279238003723 active site 279238003724 motif 2; other site 279238003725 GAD domain; Region: GAD; pfam02938 279238003726 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 279238003727 active site 279238003728 motif 3; other site 279238003729 acyl carrier protein; Provisional; Region: acpP; PRK00982 279238003730 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 279238003731 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 279238003732 dimer interface [polypeptide binding]; other site 279238003733 active site 279238003734 YceG-like family; Region: YceG; pfam02618 279238003735 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 279238003736 dimerization interface [polypeptide binding]; other site 279238003737 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 279238003738 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 279238003739 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 279238003740 inhibitor-cofactor binding pocket; inhibition site 279238003741 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279238003742 catalytic residue [active] 279238003743 CAAX protease self-immunity; Region: Abi; pfam02517 279238003744 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 279238003745 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 279238003746 catalytic loop [active] 279238003747 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 279238003748 iron binding site [ion binding]; other site 279238003749 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 279238003750 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 279238003751 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 279238003752 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 279238003753 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 279238003754 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 279238003755 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 279238003756 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 279238003757 Walker A/P-loop; other site 279238003758 ATP binding site [chemical binding]; other site 279238003759 Q-loop/lid; other site 279238003760 ABC transporter signature motif; other site 279238003761 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 279238003762 Walker B; other site 279238003763 D-loop; other site 279238003764 ABC transporter; Region: ABC_tran_2; pfam12848 279238003765 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 279238003766 Putative catalytic domain of lipopolysaccharide biosynthesis protein WalW and its bacterial homologs; Region: CE4_WalW; cd10935 279238003767 putative active site [active] 279238003768 putative catalytic site [active] 279238003769 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 279238003770 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 279238003771 phosphorylation site [posttranslational modification] 279238003772 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 279238003773 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 279238003774 putative DNA binding site [nucleotide binding]; other site 279238003775 putative Zn2+ binding site [ion binding]; other site 279238003776 AsnC family; Region: AsnC_trans_reg; pfam01037 279238003777 chorismate mutase; Provisional; Region: PRK09239 279238003778 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 279238003779 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 279238003780 substrate binding pocket [chemical binding]; other site 279238003781 chain length determination region; other site 279238003782 substrate-Mg2+ binding site; other site 279238003783 catalytic residues [active] 279238003784 aspartate-rich region 1; other site 279238003785 active site lid residues [active] 279238003786 aspartate-rich region 2; other site 279238003787 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 279238003788 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 279238003789 active site 279238003790 catalytic tetrad [active] 279238003791 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 279238003792 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 279238003793 ATP binding site [chemical binding]; other site 279238003794 putative Mg++ binding site [ion binding]; other site 279238003795 nucleotide binding region [chemical binding]; other site 279238003796 helicase superfamily c-terminal domain; Region: HELICc; smart00490 279238003797 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 279238003798 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 279238003799 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 279238003800 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 279238003801 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 279238003802 Walker A motif; other site 279238003803 ATP binding site [chemical binding]; other site 279238003804 Walker B motif; other site 279238003805 arginine finger; other site 279238003806 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 279238003807 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 279238003808 hypothetical protein; Validated; Region: PRK00153 279238003809 VacJ like lipoprotein; Region: VacJ; cl01073 279238003810 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 279238003811 Found in ATP-dependent protease La (LON); Region: LON; smart00464 279238003812 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 279238003813 Walker A motif; other site 279238003814 ATP binding site [chemical binding]; other site 279238003815 Walker B motif; other site 279238003816 arginine finger; other site 279238003817 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 279238003818 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 279238003819 IHF dimer interface [polypeptide binding]; other site 279238003820 IHF - DNA interface [nucleotide binding]; other site 279238003821 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 279238003822 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 279238003823 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 279238003824 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 279238003825 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 279238003826 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 279238003827 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 279238003828 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 279238003829 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 279238003830 rRNA interaction site [nucleotide binding]; other site 279238003831 S8 interaction site; other site 279238003832 putative laminin-1 binding site; other site 279238003833 elongation factor Ts; Provisional; Region: tsf; PRK09377 279238003834 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 279238003835 Elongation factor TS; Region: EF_TS; pfam00889 279238003836 Elongation factor TS; Region: EF_TS; pfam00889 279238003837 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 279238003838 putative nucleotide binding site [chemical binding]; other site 279238003839 uridine monophosphate binding site [chemical binding]; other site 279238003840 homohexameric interface [polypeptide binding]; other site 279238003841 ribosome recycling factor; Reviewed; Region: frr; PRK00083 279238003842 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 279238003843 hinge region; other site 279238003844 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 279238003845 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 279238003846 catalytic residue [active] 279238003847 putative FPP diphosphate binding site; other site 279238003848 putative FPP binding hydrophobic cleft; other site 279238003849 dimer interface [polypeptide binding]; other site 279238003850 putative IPP diphosphate binding site; other site 279238003851 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 279238003852 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 279238003853 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 279238003854 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 279238003855 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 279238003856 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 279238003857 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 279238003858 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 279238003859 active site 279238003860 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 279238003861 protein binding site [polypeptide binding]; other site 279238003862 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 279238003863 putative substrate binding region [chemical binding]; other site 279238003864 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 279238003865 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 279238003866 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 279238003867 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 279238003868 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 279238003869 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 279238003870 Surface antigen; Region: Bac_surface_Ag; pfam01103 279238003871 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 279238003872 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 279238003873 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 279238003874 Transcriptional regulators [Transcription]; Region: MarR; COG1846 279238003875 MarR family; Region: MarR_2; pfam12802 279238003876 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 279238003877 Type II transport protein GspH; Region: GspH; pfam12019 279238003878 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 279238003879 type II secretion system protein J; Region: gspJ; TIGR01711 279238003880 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 279238003881 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 279238003882 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 279238003883 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 279238003884 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 279238003885 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 279238003886 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 279238003887 catalytic residues [active] 279238003888 central insert; other site 279238003889 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 279238003890 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 279238003891 binding surface 279238003892 TPR repeat; Region: TPR_11; pfam13414 279238003893 TPR motif; other site 279238003894 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 279238003895 potassium uptake protein; Region: kup; TIGR00794 279238003896 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 279238003897 PAS domain; Region: PAS_9; pfam13426 279238003898 putative active site [active] 279238003899 heme pocket [chemical binding]; other site 279238003900 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 279238003901 HWE histidine kinase; Region: HWE_HK; smart00911 279238003902 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 279238003903 cheY-homologous receiver domain; Region: REC; smart00448 279238003904 phosphorylation site [posttranslational modification] 279238003905 Protein of unknown function (DUF989); Region: DUF989; pfam06181 279238003906 Intracellular septation protein A; Region: IspA; pfam04279 279238003907 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 279238003908 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 279238003909 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 279238003910 P loop; other site 279238003911 GTP binding site [chemical binding]; other site 279238003912 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 279238003913 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 279238003914 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 279238003915 FeS/SAM binding site; other site 279238003916 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 279238003917 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 279238003918 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 279238003919 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 279238003920 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 279238003921 metal binding site [ion binding]; metal-binding site 279238003922 active site 279238003923 I-site; other site 279238003924 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 279238003925 signal recognition particle protein; Provisional; Region: PRK10867 279238003926 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 279238003927 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 279238003928 P loop; other site 279238003929 GTP binding site [chemical binding]; other site 279238003930 Signal peptide binding domain; Region: SRP_SPB; pfam02978 279238003931 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 279238003932 RimM N-terminal domain; Region: RimM; pfam01782 279238003933 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 279238003934 PRC-barrel domain; Region: PRC; pfam05239 279238003935 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 279238003936 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 279238003937 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 279238003938 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 279238003939 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 279238003940 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 279238003941 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 279238003942 Partial alpha/beta-hydrolase lipase region; Region: Abhydro_lipase; pfam04083 279238003943 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 279238003944 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 279238003945 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 279238003946 AMP nucleosidase; Provisional; Region: PRK08292 279238003947 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 279238003948 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 279238003949 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 279238003950 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 279238003951 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 279238003952 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 279238003953 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 279238003954 enoyl-CoA hydratase; Provisional; Region: PRK06190 279238003955 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 279238003956 substrate binding site [chemical binding]; other site 279238003957 oxyanion hole (OAH) forming residues; other site 279238003958 trimer interface [polypeptide binding]; other site 279238003959 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 279238003960 Acyltransferase family; Region: Acyl_transf_3; pfam01757 279238003961 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 279238003962 PAS domain; Region: PAS_9; pfam13426 279238003963 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 279238003964 putative active site [active] 279238003965 heme pocket [chemical binding]; other site 279238003966 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 279238003967 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 279238003968 metal binding site [ion binding]; metal-binding site 279238003969 active site 279238003970 I-site; other site 279238003971 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 279238003972 Protein of unknown function (DUF808); Region: DUF808; cl01002 279238003973 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 279238003974 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279238003975 Coenzyme A binding pocket [chemical binding]; other site 279238003976 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 279238003977 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 279238003978 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 279238003979 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 279238003980 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 279238003981 dimer interface [polypeptide binding]; other site 279238003982 catalytic triad [active] 279238003983 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 279238003984 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 279238003985 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 279238003986 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 279238003987 NAD(P) binding site [chemical binding]; other site 279238003988 homotetramer interface [polypeptide binding]; other site 279238003989 homodimer interface [polypeptide binding]; other site 279238003990 active site 279238003991 DNA polymerase III subunit beta; Validated; Region: PRK05643 279238003992 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 279238003993 putative DNA binding surface [nucleotide binding]; other site 279238003994 dimer interface [polypeptide binding]; other site 279238003995 beta-clamp/clamp loader binding surface; other site 279238003996 beta-clamp/translesion DNA polymerase binding surface; other site 279238003997 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 279238003998 heme-binding site [chemical binding]; other site 279238003999 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 279238004000 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 279238004001 dimer interface [polypeptide binding]; other site 279238004002 putative CheW interface [polypeptide binding]; other site 279238004003 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 279238004004 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 279238004005 putative NAD(P) binding site [chemical binding]; other site 279238004006 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 279238004007 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 279238004008 active site 279238004009 putative substrate binding pocket [chemical binding]; other site 279238004010 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 279238004011 ferredoxin-NADP+ reductase; Region: PLN02852 279238004012 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 279238004013 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 279238004014 PAS domain; Region: PAS_9; pfam13426 279238004015 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 279238004016 putative active site [active] 279238004017 heme pocket [chemical binding]; other site 279238004018 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 279238004019 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 279238004020 metal binding site [ion binding]; metal-binding site 279238004021 active site 279238004022 I-site; other site 279238004023 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 279238004024 PilZ domain; Region: PilZ; pfam07238 279238004025 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 279238004026 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 279238004027 FeS/SAM binding site; other site 279238004028 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 279238004029 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 279238004030 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 279238004031 catalytic core [active] 279238004032 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 279238004033 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 279238004034 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 279238004035 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 279238004036 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 279238004037 N-acetyl-D-glucosamine binding site [chemical binding]; other site 279238004038 catalytic residue [active] 279238004039 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 279238004040 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 279238004041 dimer interface [polypeptide binding]; other site 279238004042 active site 279238004043 catalytic residue [active] 279238004044 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 279238004045 SmpB-tmRNA interface; other site 279238004046 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 279238004047 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 279238004048 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 279238004049 dimer interface [polypeptide binding]; other site 279238004050 phosphorylation site [posttranslational modification] 279238004051 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 279238004052 ATP binding site [chemical binding]; other site 279238004053 G-X-G motif; other site 279238004054 Response regulator receiver domain; Region: Response_reg; pfam00072 279238004055 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 279238004056 active site 279238004057 phosphorylation site [posttranslational modification] 279238004058 intermolecular recognition site; other site 279238004059 dimerization interface [polypeptide binding]; other site 279238004060 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 279238004061 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 279238004062 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 279238004063 active site 279238004064 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 279238004065 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 279238004066 catalytic residues [active] 279238004067 catalytic nucleophile [active] 279238004068 Presynaptic Site I dimer interface [polypeptide binding]; other site 279238004069 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 279238004070 Synaptic Flat tetramer interface [polypeptide binding]; other site 279238004071 Synaptic Site I dimer interface [polypeptide binding]; other site 279238004072 DNA binding site [nucleotide binding] 279238004073 Recombinase; Region: Recombinase; pfam07508 279238004074 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 279238004075 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 279238004076 ParB-like nuclease domain; Region: ParBc; pfam02195 279238004077 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 279238004078 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 279238004079 DNA methylase; Region: N6_N4_Mtase; pfam01555 279238004080 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 279238004081 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 279238004082 Helix-turn-helix domain; Region: HTH_38; pfam13936 279238004083 Integrase core domain; Region: rve; pfam00665 279238004084 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 279238004085 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 279238004086 Walker A motif; other site 279238004087 ATP binding site [chemical binding]; other site 279238004088 Walker B motif; other site 279238004089 DDE domain; Region: DDE_Tnp_IS240; pfam13610 279238004090 Integrase core domain; Region: rve; pfam00665 279238004091 DDE domain; Region: DDE_Tnp_IS240; pfam13610 279238004092 SnoaL-like domain; Region: SnoaL_4; pfam13577 279238004093 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 279238004094 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 279238004095 enoyl-CoA hydratase; Provisional; Region: PRK06494 279238004096 substrate binding site [chemical binding]; other site 279238004097 oxyanion hole (OAH) forming residues; other site 279238004098 trimer interface [polypeptide binding]; other site 279238004099 enoyl-CoA hydratase; Provisional; Region: PRK12478 279238004100 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 279238004101 substrate binding site [chemical binding]; other site 279238004102 oxyanion hole (OAH) forming residues; other site 279238004103 trimer interface [polypeptide binding]; other site 279238004104 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; cd00531 279238004105 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 279238004106 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 279238004107 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 279238004108 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 279238004109 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 279238004110 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 279238004111 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 279238004112 acyl-activating enzyme (AAE) consensus motif; other site 279238004113 acyl-activating enzyme (AAE) consensus motif; other site 279238004114 putative AMP binding site [chemical binding]; other site 279238004115 putative active site [active] 279238004116 putative CoA binding site [chemical binding]; other site 279238004117 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238004118 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238004119 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 279238004120 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 279238004121 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 279238004122 dimerization interface [polypeptide binding]; other site 279238004123 active site 279238004124 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238004125 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 279238004126 N-terminal plug; other site 279238004127 ligand-binding site [chemical binding]; other site 279238004128 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 279238004129 classical (c) SDRs; Region: SDR_c; cd05233 279238004130 NAD(P) binding site [chemical binding]; other site 279238004131 active site 279238004132 Hypothetical enzyme TM0436 resembles the zinc-dependent alcohol dehydrogenases (ADH); Region: MDR_TM0436_like; cd08231 279238004133 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 279238004134 catalytic Zn binding site [ion binding]; other site 279238004135 structural Zn binding site [ion binding]; other site 279238004136 tetramer interface [polypeptide binding]; other site 279238004137 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 279238004138 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 279238004139 catalytic loop [active] 279238004140 iron binding site [ion binding]; other site 279238004141 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 279238004142 Cytochrome P450; Region: p450; cl12078 279238004143 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg5; cd04780 279238004144 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 279238004145 DNA binding residues [nucleotide binding] 279238004146 putative dimer interface [polypeptide binding]; other site 279238004147 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 279238004148 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 279238004149 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 279238004150 Integrase core domain; Region: rve; pfam00665 279238004151 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 279238004152 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 279238004153 non-specific DNA binding site [nucleotide binding]; other site 279238004154 salt bridge; other site 279238004155 sequence-specific DNA binding site [nucleotide binding]; other site 279238004156 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 279238004157 SnoaL-like domain; Region: SnoaL_4; pfam13577 279238004158 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 279238004159 Integrase core domain; Region: rve; pfam00665 279238004160 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 279238004161 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 279238004162 iron-sulfur cluster [ion binding]; other site 279238004163 [2Fe-2S] cluster binding site [ion binding]; other site 279238004164 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 279238004165 hydrophobic ligand binding site; other site 279238004166 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 279238004167 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 279238004168 iron-sulfur cluster [ion binding]; other site 279238004169 [2Fe-2S] cluster binding site [ion binding]; other site 279238004170 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 279238004171 alpha subunit interface [polypeptide binding]; other site 279238004172 active site 279238004173 substrate binding site [chemical binding]; other site 279238004174 Fe binding site [ion binding]; other site 279238004175 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238004176 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 279238004177 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 279238004178 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 279238004179 FAD binding domain; Region: FAD_binding_4; pfam01565 279238004180 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 279238004181 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 279238004182 FAD binding domain; Region: FAD_binding_4; pfam01565 279238004183 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 279238004184 Activator of aromatic catabolism; Region: XylR_N; pfam06505 279238004185 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 279238004186 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 279238004187 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 279238004188 Walker A motif; other site 279238004189 ATP binding site [chemical binding]; other site 279238004190 Walker B motif; other site 279238004191 arginine finger; other site 279238004192 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 279238004193 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 279238004194 Integrase core domain; Region: rve; pfam00665 279238004195 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 279238004196 transmembrane helices; other site 279238004197 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 279238004198 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 279238004199 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 279238004200 Ligand Binding Site [chemical binding]; other site 279238004201 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 279238004202 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 279238004203 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 279238004204 putative ion selectivity filter; other site 279238004205 putative pore gating glutamate residue; other site 279238004206 putative H+/Cl- coupling transport residue; other site 279238004207 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238004208 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 279238004209 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 279238004210 dimerization interface [polypeptide binding]; other site 279238004211 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 279238004212 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 279238004213 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 279238004214 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 279238004215 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 279238004216 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 279238004217 active site 279238004218 homotetramer interface [polypeptide binding]; other site 279238004219 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 279238004220 Integrase core domain; Region: rve; pfam00665 279238004221 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cd06222 279238004222 RNA/DNA hybrid binding site [nucleotide binding]; other site 279238004223 active site 279238004224 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 279238004225 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 279238004226 active site 279238004227 phosphorylation site [posttranslational modification] 279238004228 intermolecular recognition site; other site 279238004229 dimerization interface [polypeptide binding]; other site 279238004230 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 279238004231 DNA binding site [nucleotide binding] 279238004232 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 279238004233 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 279238004234 dimer interface [polypeptide binding]; other site 279238004235 phosphorylation site [posttranslational modification] 279238004236 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 279238004237 ATP binding site [chemical binding]; other site 279238004238 Mg2+ binding site [ion binding]; other site 279238004239 G-X-G motif; other site 279238004240 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 279238004241 potassium uptake protein; Region: kup; TIGR00794 279238004242 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 279238004243 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 279238004244 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 279238004245 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 279238004246 BON domain; Region: BON; pfam04972 279238004247 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 279238004248 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 279238004249 TadE-like protein; Region: TadE; pfam07811 279238004250 AAA domain; Region: AAA_31; pfam13614 279238004251 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 279238004252 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 279238004253 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 279238004254 ATP binding site [chemical binding]; other site 279238004255 Walker A motif; other site 279238004256 hexamer interface [polypeptide binding]; other site 279238004257 Walker B motif; other site 279238004258 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 279238004259 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 279238004260 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 279238004261 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 279238004262 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 279238004263 binding surface 279238004264 TPR motif; other site 279238004265 Tetratricopeptide repeat; Region: TPR_16; pfam13432 279238004266 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 279238004267 Transcriptional regulator [Transcription]; Region: IclR; COG1414 279238004268 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 279238004269 Bacterial transcriptional regulator; Region: IclR; pfam01614 279238004270 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 279238004271 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 279238004272 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 279238004273 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 279238004274 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 279238004275 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 279238004276 acyl-CoA synthetase; Validated; Region: PRK07798 279238004277 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 279238004278 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 279238004279 acyl-activating enzyme (AAE) consensus motif; other site 279238004280 acyl-activating enzyme (AAE) consensus motif; other site 279238004281 AMP binding site [chemical binding]; other site 279238004282 active site 279238004283 CoA binding site [chemical binding]; other site 279238004284 enoyl-CoA hydratase; Provisional; Region: PRK06495 279238004285 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 279238004286 substrate binding site [chemical binding]; other site 279238004287 oxyanion hole (OAH) forming residues; other site 279238004288 trimer interface [polypeptide binding]; other site 279238004289 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238004290 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 279238004291 N-terminal plug; other site 279238004292 ligand-binding site [chemical binding]; other site 279238004293 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 279238004294 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 279238004295 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238004296 putative substrate translocation pore; other site 279238004297 Uncharacterized conserved protein [Function unknown]; Region: COG4544 279238004298 DNA Polymerase Y-family; Region: PolY_like; cd03468 279238004299 active site 279238004300 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 279238004301 DNA binding site [nucleotide binding] 279238004302 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 279238004303 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 279238004304 putative active site [active] 279238004305 putative PHP Thumb interface [polypeptide binding]; other site 279238004306 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 279238004307 generic binding surface II; other site 279238004308 generic binding surface I; other site 279238004309 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 279238004310 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 279238004311 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238004312 Major Facilitator Superfamily; Region: MFS_1; pfam07690 279238004313 putative substrate translocation pore; other site 279238004314 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238004315 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238004316 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238004317 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 279238004318 N-terminal plug; other site 279238004319 ligand-binding site [chemical binding]; other site 279238004320 choline dehydrogenase; Validated; Region: PRK02106 279238004321 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 279238004322 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 279238004323 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 279238004324 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; cl00184 279238004325 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 279238004326 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 279238004327 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 279238004328 putative active site [active] 279238004329 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 279238004330 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 279238004331 N-terminal plug; other site 279238004332 ligand-binding site [chemical binding]; other site 279238004333 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 279238004334 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 279238004335 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 279238004336 Q-loop/lid; other site 279238004337 ABC transporter signature motif; other site 279238004338 Walker B; other site 279238004339 D-loop; other site 279238004340 H-loop/switch region; other site 279238004341 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 279238004342 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 279238004343 dimer interface [polypeptide binding]; other site 279238004344 conserved gate region; other site 279238004345 putative PBP binding loops; other site 279238004346 ABC-ATPase subunit interface; other site 279238004347 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 279238004348 Phosphoesterase family; Region: Phosphoesterase; pfam04185 279238004349 Domain of unknown function (DUF756); Region: DUF756; pfam05506 279238004350 Domain of unknown function (DUF756); Region: DUF756; pfam05506 279238004351 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 279238004352 GAF domain; Region: GAF; pfam01590 279238004353 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 279238004354 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 279238004355 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 279238004356 Transcriptional regulator [Transcription]; Region: IclR; COG1414 279238004357 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 279238004358 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 279238004359 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238004360 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 279238004361 N-terminal plug; other site 279238004362 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 279238004363 classical (c) SDRs; Region: SDR_c; cd05233 279238004364 NAD(P) binding site [chemical binding]; other site 279238004365 active site 279238004366 short chain dehydrogenase; Validated; Region: PRK06484 279238004367 classical (c) SDRs; Region: SDR_c; cd05233 279238004368 NAD(P) binding site [chemical binding]; other site 279238004369 active site 279238004370 classical (c) SDRs; Region: SDR_c; cd05233 279238004371 NAD(P) binding site [chemical binding]; other site 279238004372 active site 279238004373 enoyl-CoA hydratase; Provisional; Region: PRK06495 279238004374 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 279238004375 substrate binding site [chemical binding]; other site 279238004376 oxyanion hole (OAH) forming residues; other site 279238004377 trimer interface [polypeptide binding]; other site 279238004378 acyl-CoA synthetase; Validated; Region: PRK07798 279238004379 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 279238004380 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_5; cd05924 279238004381 acyl-activating enzyme (AAE) consensus motif; other site 279238004382 acyl-activating enzyme (AAE) consensus motif; other site 279238004383 putative AMP binding site [chemical binding]; other site 279238004384 putative active site [active] 279238004385 putative CoA binding site [chemical binding]; other site 279238004386 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279238004387 classical (c) SDRs; Region: SDR_c; cd05233 279238004388 NAD(P) binding site [chemical binding]; other site 279238004389 active site 279238004390 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238004391 active site 279238004392 Transcriptional regulator [Transcription]; Region: IclR; COG1414 279238004393 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 279238004394 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 279238004395 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 279238004396 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 279238004397 active site 279238004398 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 279238004399 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 279238004400 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 279238004401 active site 279238004402 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; cd00531 279238004403 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 279238004404 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 279238004405 active site 2 [active] 279238004406 active site 1 [active] 279238004407 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 279238004408 catalytic triad [active] 279238004409 dimer interface [polypeptide binding]; other site 279238004410 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 279238004411 Old yellow enzyme (OYE)-related FMN binding domain, group 5. 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_5_FMN; cd04747 279238004412 putative active site [active] 279238004413 putative FMN binding site [chemical binding]; other site 279238004414 putative substrate binding site [chemical binding]; other site 279238004415 putative catalytic residue [active] 279238004416 Domain of unknown function (DUF1971); Region: DUF1971; pfam09313 279238004417 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 279238004418 apolar tunnel; other site 279238004419 heme binding site [chemical binding]; other site 279238004420 dimerization interface [polypeptide binding]; other site 279238004421 Alternative oxidase, ferritin-like diiron-binding domain; Region: AOX; cd01053 279238004422 diiron binding motif [ion binding]; other site 279238004423 PAS domain S-box; Region: sensory_box; TIGR00229 279238004424 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 279238004425 putative active site [active] 279238004426 heme pocket [chemical binding]; other site 279238004427 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 279238004428 dimer interface [polypeptide binding]; other site 279238004429 phosphorylation site [posttranslational modification] 279238004430 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 279238004431 ATP binding site [chemical binding]; other site 279238004432 Mg2+ binding site [ion binding]; other site 279238004433 G-X-G motif; other site 279238004434 response regulator FixJ; Provisional; Region: fixJ; PRK09390 279238004435 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 279238004436 active site 279238004437 phosphorylation site [posttranslational modification] 279238004438 intermolecular recognition site; other site 279238004439 dimerization interface [polypeptide binding]; other site 279238004440 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 279238004441 DNA binding residues [nucleotide binding] 279238004442 dimerization interface [polypeptide binding]; other site 279238004443 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 279238004444 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 279238004445 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 279238004446 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 279238004447 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12844 279238004448 Predicted oxidoreductase [General function prediction only]; Region: COG3573 279238004449 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 279238004450 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 279238004451 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 279238004452 dimerization interface [polypeptide binding]; other site 279238004453 active site 279238004454 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 279238004455 Carboxylesterase family; Region: COesterase; pfam00135 279238004456 substrate binding pocket [chemical binding]; other site 279238004457 catalytic triad [active] 279238004458 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 279238004459 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 279238004460 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 279238004461 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 279238004462 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 279238004463 dimer interface [polypeptide binding]; other site 279238004464 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 279238004465 active site 279238004466 metal binding site [ion binding]; metal-binding site 279238004467 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238004468 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238004469 benzoate transport; Region: 2A0115; TIGR00895 279238004470 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238004471 putative substrate translocation pore; other site 279238004472 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 279238004473 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 279238004474 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 279238004475 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 279238004476 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 279238004477 shikimate binding site; other site 279238004478 NAD(P) binding site [chemical binding]; other site 279238004479 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 279238004480 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279238004481 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 279238004482 DNA binding residues [nucleotide binding] 279238004483 Peptidase S8 family domain, uncharacterized subfamily 4; Region: Peptidases_S8_4; cd05561 279238004484 active site 279238004485 catalytic triad [active] 279238004486 PRC-barrel domain; Region: PRC; pfam05239 279238004487 GH18 domain of an uncharacterized family of bacterial proteins, which share a common three-domain architecture: an N-terminal glycosyl hydrolase family 18 (GH18) domain, a glycosyl transferase family 2 domain, and a C-terminal polysaccharide deacetylase...; Region: GH18_trifunctional; cd06549 279238004488 putative active site [active] 279238004489 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 279238004490 Catalytic NodB homology domain of uncharacterized bacterial glycosyl transferase, group 2-like family proteins; Region: CE4_GT2-like; cd10962 279238004491 NodB motif; other site 279238004492 putative active site [active] 279238004493 putative catalytic site [active] 279238004494 putative Zn binding site [ion binding]; other site 279238004495 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 279238004496 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 279238004497 DXD motif; other site 279238004498 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 279238004499 Predicted integral membrane protein [Function unknown]; Region: COG0392 279238004500 Uncharacterized conserved protein [Function unknown]; Region: COG2898 279238004501 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 279238004502 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 279238004503 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 279238004504 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 279238004505 active site 279238004506 phosphorylation site [posttranslational modification] 279238004507 intermolecular recognition site; other site 279238004508 dimerization interface [polypeptide binding]; other site 279238004509 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 279238004510 DNA binding site [nucleotide binding] 279238004511 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 279238004512 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 279238004513 ATP binding site [chemical binding]; other site 279238004514 Mg2+ binding site [ion binding]; other site 279238004515 G-X-G motif; other site 279238004516 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 279238004517 Chromate transporter; Region: Chromate_transp; pfam02417 279238004518 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 279238004519 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 279238004520 Beta-Casp domain; Region: Beta-Casp; smart01027 279238004521 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 279238004522 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 279238004523 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 279238004524 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 279238004525 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 279238004526 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 279238004527 SapC; Region: SapC; pfam07277 279238004528 Cupin-like domain; Region: Cupin_8; pfam13621 279238004529 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 279238004530 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 279238004531 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 279238004532 active site 279238004533 catalytic residues [active] 279238004534 Transcriptional regulators [Transcription]; Region: PurR; COG1609 279238004535 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 279238004536 DNA binding site [nucleotide binding] 279238004537 domain linker motif; other site 279238004538 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 279238004539 putative dimerization interface [polypeptide binding]; other site 279238004540 putative ligand binding site [chemical binding]; other site 279238004541 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238004542 Major Facilitator Superfamily; Region: MFS_1; pfam07690 279238004543 putative substrate translocation pore; other site 279238004544 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 279238004545 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 279238004546 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 279238004547 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 279238004548 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 279238004549 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 279238004550 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 279238004551 active site 279238004552 phosphorylation site [posttranslational modification] 279238004553 intermolecular recognition site; other site 279238004554 dimerization interface [polypeptide binding]; other site 279238004555 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 279238004556 DNA binding residues [nucleotide binding] 279238004557 dimerization interface [polypeptide binding]; other site 279238004558 PAS fold; Region: PAS_4; pfam08448 279238004559 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 279238004560 putative active site [active] 279238004561 heme pocket [chemical binding]; other site 279238004562 PAS fold; Region: PAS; pfam00989 279238004563 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 279238004564 putative active site [active] 279238004565 heme pocket [chemical binding]; other site 279238004566 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 279238004567 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 279238004568 putative active site [active] 279238004569 heme pocket [chemical binding]; other site 279238004570 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 279238004571 dimer interface [polypeptide binding]; other site 279238004572 phosphorylation site [posttranslational modification] 279238004573 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 279238004574 ATP binding site [chemical binding]; other site 279238004575 Mg2+ binding site [ion binding]; other site 279238004576 G-X-G motif; other site 279238004577 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 279238004578 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 279238004579 active site 279238004580 phosphorylation site [posttranslational modification] 279238004581 intermolecular recognition site; other site 279238004582 dimerization interface [polypeptide binding]; other site 279238004583 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 279238004584 DNA binding residues [nucleotide binding] 279238004585 dimerization interface [polypeptide binding]; other site 279238004586 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 279238004587 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238004588 NAD(P) binding site [chemical binding]; other site 279238004589 active site 279238004590 N-terminal Putative NodB-like catalytic domain of hypothetical proteins containing C-terminal cadherin or MopE copper binding domains; Region: CE4_cadherin_MopE_like_N; cd10934 279238004591 NodB motif; other site 279238004592 putative active site [active] 279238004593 putative catalytic site [active] 279238004594 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 279238004595 Ca2+ binding site [ion binding]; other site 279238004596 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 279238004597 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 279238004598 Predicted membrane protein [Function unknown]; Region: COG4267 279238004599 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 279238004600 Tetratricopeptide repeat; Region: TPR_16; pfam13432 279238004601 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 279238004602 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_3; cd03813 279238004603 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 279238004604 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 279238004605 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 279238004606 active site 279238004607 phosphorylation site [posttranslational modification] 279238004608 intermolecular recognition site; other site 279238004609 dimerization interface [polypeptide binding]; other site 279238004610 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 279238004611 DNA binding residues [nucleotide binding] 279238004612 dimerization interface [polypeptide binding]; other site 279238004613 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 279238004614 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238004615 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 279238004616 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 279238004617 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 279238004618 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 279238004619 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 279238004620 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 279238004621 active site 279238004622 phosphorylation site [posttranslational modification] 279238004623 intermolecular recognition site; other site 279238004624 dimerization interface [polypeptide binding]; other site 279238004625 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 279238004626 DNA binding site [nucleotide binding] 279238004627 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 279238004628 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 279238004629 dimerization interface [polypeptide binding]; other site 279238004630 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 279238004631 dimer interface [polypeptide binding]; other site 279238004632 phosphorylation site [posttranslational modification] 279238004633 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 279238004634 ATP binding site [chemical binding]; other site 279238004635 Mg2+ binding site [ion binding]; other site 279238004636 G-X-G motif; other site 279238004637 HI0933-like protein; Region: HI0933_like; pfam03486 279238004638 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 279238004639 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 279238004640 Nitroreductase-like family 2. 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_2; cd02138 279238004641 putative FMN binding site [chemical binding]; other site 279238004642 Predicted membrane protein [Function unknown]; Region: COG2259 279238004643 Pirin-related protein [General function prediction only]; Region: COG1741 279238004644 Pirin; Region: Pirin; pfam02678 279238004645 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279238004646 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238004647 LysR substrate binding domain; Region: LysR_substrate; pfam03466 279238004648 dimerization interface [polypeptide binding]; other site 279238004649 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 279238004650 putative active site [active] 279238004651 putative catalytic site [active] 279238004652 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 279238004653 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 279238004654 ATP-grasp domain; Region: ATP-grasp_4; cl17255 279238004655 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 279238004656 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 279238004657 carboxyltransferase (CT) interaction site; other site 279238004658 biotinylation site [posttranslational modification]; other site 279238004659 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 279238004660 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 279238004661 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 279238004662 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 279238004663 Predicted esterase [General function prediction only]; Region: COG0627 279238004664 isovaleryl-CoA dehydrogenase; Region: PLN02519 279238004665 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 279238004666 substrate binding site [chemical binding]; other site 279238004667 FAD binding site [chemical binding]; other site 279238004668 catalytic base [active] 279238004669 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279238004670 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238004671 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 279238004672 dimerization interface [polypeptide binding]; other site 279238004673 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 279238004674 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 279238004675 Cytochrome P450; Region: p450; cl12078 279238004676 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 279238004677 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279238004678 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238004679 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238004680 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 279238004681 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 279238004682 FAD binding domain; Region: FAD_binding_4; pfam01565 279238004683 Serine hydrolase; Region: Ser_hydrolase; pfam06821 279238004684 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 279238004685 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 279238004686 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 279238004687 active site 279238004688 catalytic site [active] 279238004689 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 279238004690 phosphoglucomutase; Region: PLN02307 279238004691 active site 279238004692 substrate binding site [chemical binding]; other site 279238004693 metal binding site [ion binding]; metal-binding site 279238004694 glycogen synthase; Provisional; Region: glgA; PRK00654 279238004695 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 279238004696 ADP-binding pocket [chemical binding]; other site 279238004697 homodimer interface [polypeptide binding]; other site 279238004698 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 279238004699 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 279238004700 ligand binding site; other site 279238004701 oligomer interface; other site 279238004702 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 279238004703 dimer interface [polypeptide binding]; other site 279238004704 N-terminal domain interface [polypeptide binding]; other site 279238004705 sulfate 1 binding site; other site 279238004706 glycogen branching enzyme; Provisional; Region: PRK05402 279238004707 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 279238004708 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 279238004709 active site 279238004710 catalytic site [active] 279238004711 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 279238004712 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 279238004713 homodimer interface [polypeptide binding]; other site 279238004714 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 279238004715 active site pocket [active] 279238004716 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 279238004717 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 279238004718 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 279238004719 N-terminal plug; other site 279238004720 ligand-binding site [chemical binding]; other site 279238004721 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 279238004722 dimer interface [polypeptide binding]; other site 279238004723 phosphorylation site [posttranslational modification] 279238004724 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 279238004725 ATP binding site [chemical binding]; other site 279238004726 Mg2+ binding site [ion binding]; other site 279238004727 G-X-G motif; other site 279238004728 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 279238004729 active site 279238004730 phosphorylation site [posttranslational modification] 279238004731 intermolecular recognition site; other site 279238004732 dimerization interface [polypeptide binding]; other site 279238004733 Response regulator receiver domain; Region: Response_reg; pfam00072 279238004734 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 279238004735 active site 279238004736 phosphorylation site [posttranslational modification] 279238004737 intermolecular recognition site; other site 279238004738 dimerization interface [polypeptide binding]; other site 279238004739 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 279238004740 DNA binding residues [nucleotide binding] 279238004741 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 279238004742 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 279238004743 NAD(P) binding site [chemical binding]; other site 279238004744 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 279238004745 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 279238004746 NAD(P) binding site [chemical binding]; other site 279238004747 catalytic residues [active] 279238004748 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 279238004749 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 279238004750 substrate binding site [chemical binding]; other site 279238004751 oxyanion hole (OAH) forming residues; other site 279238004752 trimer interface [polypeptide binding]; other site 279238004753 hypothetical protein; Provisional; Region: PRK09133 279238004754 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 279238004755 putative metal binding site [ion binding]; other site 279238004756 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 279238004757 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 279238004758 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 279238004759 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 279238004760 [2Fe-2S] cluster binding site [ion binding]; other site 279238004761 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 279238004762 alpha subunit interface [polypeptide binding]; other site 279238004763 active site 279238004764 substrate binding site [chemical binding]; other site 279238004765 Fe binding site [ion binding]; other site 279238004766 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 279238004767 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 279238004768 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 279238004769 RAB proteins geranylgeranyltransferase component A (RAB escort protein) [Posttranslational modification, protein turnover, chaperones]; Region: MRS6; cl17678 279238004770 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 279238004771 Tetratricopeptide repeat; Region: TPR_16; pfam13432 279238004772 Tetratricopeptide repeat; Region: TPR_16; pfam13432 279238004773 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 279238004774 TPR motif; other site 279238004775 binding surface 279238004776 TPR repeat; Region: TPR_11; pfam13414 279238004777 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 279238004778 TPR motif; other site 279238004779 binding surface 279238004780 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238004781 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 279238004782 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 279238004783 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 279238004784 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 279238004785 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279238004786 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238004787 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 279238004788 dimerization interface [polypeptide binding]; other site 279238004789 benzoylformate decarboxylase; Reviewed; Region: PRK07092 279238004790 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 279238004791 PYR/PP interface [polypeptide binding]; other site 279238004792 dimer interface [polypeptide binding]; other site 279238004793 TPP binding site [chemical binding]; other site 279238004794 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 279238004795 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 279238004796 TPP-binding site [chemical binding]; other site 279238004797 dimer interface [polypeptide binding]; other site 279238004798 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 279238004799 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 279238004800 iron-sulfur cluster [ion binding]; other site 279238004801 [2Fe-2S] cluster binding site [ion binding]; other site 279238004802 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 279238004803 putative alpha subunit interface [polypeptide binding]; other site 279238004804 putative active site [active] 279238004805 putative substrate binding site [chemical binding]; other site 279238004806 Fe binding site [ion binding]; other site 279238004807 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 279238004808 inter-subunit interface; other site 279238004809 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 279238004810 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 279238004811 hexamer interface [polypeptide binding]; other site 279238004812 ligand binding site [chemical binding]; other site 279238004813 putative active site [active] 279238004814 NAD(P) binding site [chemical binding]; other site 279238004815 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 279238004816 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 279238004817 dimerization interface [polypeptide binding]; other site 279238004818 putative DNA binding site [nucleotide binding]; other site 279238004819 putative Zn2+ binding site [ion binding]; other site 279238004820 AsnC family; Region: AsnC_trans_reg; pfam01037 279238004821 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238004822 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238004823 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 279238004824 methylamine dehydrogenase (amicyanin) heavy chain; Region: TTQ_MADH_Hv; TIGR02658 279238004825 Methylamine utilisation protein MauE; Region: MauE; pfam07291 279238004826 Methylamine utilization (mau) D family; mauD protein is the translation product of the mauD gene found in methylotrophic bacteria, which are able to use methylamine as a sole carbon source and a nitrogen source. mauD is an essential accessory protein for...; Region: mauD; cd02967 279238004827 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 279238004828 catalytic residues [active] 279238004829 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 279238004830 Cytochrome c; Region: Cytochrom_C; pfam00034 279238004831 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238004832 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 279238004833 N-terminal plug; other site 279238004834 ligand-binding site [chemical binding]; other site 279238004835 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 279238004836 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 279238004837 NAD(P) binding site [chemical binding]; other site 279238004838 catalytic residues [active] 279238004839 AMP-binding domain protein; Validated; Region: PRK08315 279238004840 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 279238004841 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 279238004842 acyl-activating enzyme (AAE) consensus motif; other site 279238004843 acyl-activating enzyme (AAE) consensus motif; other site 279238004844 putative AMP binding site [chemical binding]; other site 279238004845 putative active site [active] 279238004846 putative CoA binding site [chemical binding]; other site 279238004847 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 279238004848 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 279238004849 putative DNA binding site [nucleotide binding]; other site 279238004850 putative homodimer interface [polypeptide binding]; other site 279238004851 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 279238004852 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 279238004853 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 279238004854 active site 279238004855 DNA binding site [nucleotide binding] 279238004856 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 279238004857 DNA binding site [nucleotide binding] 279238004858 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 279238004859 nucleotide binding site [chemical binding]; other site 279238004860 fumarate hydratase; Reviewed; Region: fumC; PRK00485 279238004861 Class II fumarases; Region: Fumarase_classII; cd01362 279238004862 active site 279238004863 tetramer interface [polypeptide binding]; other site 279238004864 Low affinity iron permease; Region: Iron_permease; pfam04120 279238004865 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 279238004866 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 279238004867 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 279238004868 Ligand binding site; other site 279238004869 metal-binding site 279238004870 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 279238004871 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 279238004872 XdhC Rossmann domain; Region: XdhC_C; pfam13478 279238004873 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 279238004874 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 279238004875 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 279238004876 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 279238004877 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 279238004878 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 279238004879 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 279238004880 catalytic loop [active] 279238004881 iron binding site [ion binding]; other site 279238004882 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 279238004883 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238004884 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 279238004885 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 279238004886 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 279238004887 active site 279238004888 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 279238004889 Phosphotransferase enzyme family; Region: APH; pfam01636 279238004890 putative active site [active] 279238004891 putative substrate binding site [chemical binding]; other site 279238004892 ATP binding site [chemical binding]; other site 279238004893 Uncharacterized small protein (DUF2292); Region: DUF2292; pfam10055 279238004894 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238004895 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 279238004896 N-terminal plug; other site 279238004897 ligand-binding site [chemical binding]; other site 279238004898 Uncharacterized conserved protein [Function unknown]; Region: COG2013 279238004899 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238004900 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 279238004901 YceI-like domain; Region: YceI; smart00867 279238004902 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238004903 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238004904 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 279238004905 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238004906 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 279238004907 putative substrate translocation pore; other site 279238004908 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238004909 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 279238004910 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 279238004911 HlyD family secretion protein; Region: HlyD_3; pfam13437 279238004912 peroxiredoxin; Region: AhpC; TIGR03137 279238004913 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 279238004914 dimer interface [polypeptide binding]; other site 279238004915 decamer (pentamer of dimers) interface [polypeptide binding]; other site 279238004916 catalytic triad [active] 279238004917 peroxidatic and resolving cysteines [active] 279238004918 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 279238004919 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 279238004920 catalytic residue [active] 279238004921 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 279238004922 catalytic residues [active] 279238004923 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 279238004924 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 279238004925 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 279238004926 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 279238004927 Domain of unknown function DUF87; Region: DUF87; pfam01935 279238004928 HerA helicase [Replication, recombination, and repair]; Region: COG0433 279238004929 hypothetical protein; Provisional; Region: PRK00872 279238004930 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 279238004931 MarR family; Region: MarR_2; pfam12802 279238004932 Cytochrome c2 [Energy production and conversion]; Region: COG3474 279238004933 short chain dehydrogenase; Validated; Region: PRK08324 279238004934 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 279238004935 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238004936 NAD(P) binding site [chemical binding]; other site 279238004937 active site 279238004938 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 279238004939 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 279238004940 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 279238004941 L-rhamnose catabolism isomerase, Pseudomonas stutzeri subtype; Region: L_rham_iso_rhiz; TIGR02629 279238004942 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 279238004943 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 279238004944 Transcriptional regulators [Transcription]; Region: PurR; COG1609 279238004945 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 279238004946 DNA binding site [nucleotide binding] 279238004947 domain linker motif; other site 279238004948 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 279238004949 putative dimerization interface [polypeptide binding]; other site 279238004950 putative ligand binding site [chemical binding]; other site 279238004951 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 279238004952 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 279238004953 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 279238004954 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 279238004955 Carboxylesterase family; Region: COesterase; pfam00135 279238004956 substrate binding pocket [chemical binding]; other site 279238004957 catalytic triad [active] 279238004958 Rrf2 family protein; Region: rrf2_super; TIGR00738 279238004959 Transcriptional regulator; Region: Rrf2; pfam02082 279238004960 Outer membrane lipoprotein; Region: YfiO; pfam13525 279238004961 Protein of unknown function, DUF481; Region: DUF481; pfam04338 279238004962 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 279238004963 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_2; cd03814 279238004964 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 279238004965 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 279238004966 putative active site [active] 279238004967 putative metal binding site [ion binding]; other site 279238004968 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 279238004969 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 279238004970 Walker A/P-loop; other site 279238004971 ATP binding site [chemical binding]; other site 279238004972 Q-loop/lid; other site 279238004973 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 279238004974 ABC transporter signature motif; other site 279238004975 Walker B; other site 279238004976 D-loop; other site 279238004977 H-loop/switch region; other site 279238004978 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279238004979 Coenzyme A binding pocket [chemical binding]; other site 279238004980 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 279238004981 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 279238004982 nucleotide binding pocket [chemical binding]; other site 279238004983 K-X-D-G motif; other site 279238004984 catalytic site [active] 279238004985 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 279238004986 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 279238004987 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 279238004988 Dimer interface [polypeptide binding]; other site 279238004989 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 279238004990 Competence-damaged protein; Region: CinA; pfam02464 279238004991 enoyl-CoA hydratase; Provisional; Region: PRK06688 279238004992 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 279238004993 substrate binding site [chemical binding]; other site 279238004994 oxyanion hole (OAH) forming residues; other site 279238004995 trimer interface [polypeptide binding]; other site 279238004996 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 279238004997 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 279238004998 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 279238004999 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 279238005000 Iron-sulfur protein interface; other site 279238005001 proximal quinone binding site [chemical binding]; other site 279238005002 SdhD (CybS) interface [polypeptide binding]; other site 279238005003 proximal heme binding site [chemical binding]; other site 279238005004 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 279238005005 putative SdhC subunit interface [polypeptide binding]; other site 279238005006 putative proximal heme binding site [chemical binding]; other site 279238005007 putative Iron-sulfur protein interface [polypeptide binding]; other site 279238005008 putative proximal quinone binding site; other site 279238005009 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 279238005010 L-aspartate oxidase; Provisional; Region: PRK06175 279238005011 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 279238005012 Predicted metalloprotease [General function prediction only]; Region: COG2321 279238005013 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 279238005014 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238005015 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 279238005016 NAD(P) binding site [chemical binding]; other site 279238005017 active site 279238005018 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 279238005019 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 279238005020 Peptidase family M28; Region: Peptidase_M28; pfam04389 279238005021 metal binding site [ion binding]; metal-binding site 279238005022 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 279238005023 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 279238005024 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 279238005025 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 279238005026 active site 279238005027 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 279238005028 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 279238005029 TPR repeat; Region: TPR_11; pfam13414 279238005030 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 279238005031 binding surface 279238005032 TPR motif; other site 279238005033 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 279238005034 putative active site [active] 279238005035 Ap4A binding site [chemical binding]; other site 279238005036 nudix motif; other site 279238005037 putative metal binding site [ion binding]; other site 279238005038 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 279238005039 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 279238005040 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 279238005041 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 279238005042 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 279238005043 dimer interface [polypeptide binding]; other site 279238005044 PYR/PP interface [polypeptide binding]; other site 279238005045 TPP binding site [chemical binding]; other site 279238005046 substrate binding site [chemical binding]; other site 279238005047 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 279238005048 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 279238005049 TPP-binding site [chemical binding]; other site 279238005050 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 279238005051 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 279238005052 DNA photolyase; Region: DNA_photolyase; pfam00875 279238005053 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 279238005054 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 279238005055 S-adenosylmethionine binding site [chemical binding]; other site 279238005056 PilZ domain; Region: PilZ; pfam07238 279238005057 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 279238005058 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238005059 NAD(P) binding site [chemical binding]; other site 279238005060 active site 279238005061 amidophosphoribosyltransferase; Provisional; Region: PRK09123 279238005062 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 279238005063 active site 279238005064 tetramer interface [polypeptide binding]; other site 279238005065 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 279238005066 active site 279238005067 MASE1; Region: MASE1; cl17823 279238005068 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 279238005069 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 279238005070 FtsX-like permease family; Region: FtsX; pfam02687 279238005071 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 279238005072 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 279238005073 Walker A/P-loop; other site 279238005074 ATP binding site [chemical binding]; other site 279238005075 Q-loop/lid; other site 279238005076 ABC transporter signature motif; other site 279238005077 Walker B; other site 279238005078 D-loop; other site 279238005079 H-loop/switch region; other site 279238005080 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 279238005081 catalytic residues [active] 279238005082 dimer interface [polypeptide binding]; other site 279238005083 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 279238005084 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 279238005085 putative active site [active] 279238005086 putative PHP Thumb interface [polypeptide binding]; other site 279238005087 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 279238005088 generic binding surface II; other site 279238005089 generic binding surface I; other site 279238005090 putative acyl-CoA synthetase; Provisional; Region: PRK06018 279238005091 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 279238005092 dimer interface [polypeptide binding]; other site 279238005093 acyl-activating enzyme (AAE) consensus motif; other site 279238005094 putative active site [active] 279238005095 AMP binding site [chemical binding]; other site 279238005096 putative CoA binding site [chemical binding]; other site 279238005097 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 279238005098 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 279238005099 FeS/SAM binding site; other site 279238005100 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 279238005101 dimer interface [polypeptide binding]; other site 279238005102 phosphorylation site [posttranslational modification] 279238005103 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 279238005104 ATP binding site [chemical binding]; other site 279238005105 Mg2+ binding site [ion binding]; other site 279238005106 G-X-G motif; other site 279238005107 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 279238005108 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 279238005109 active site 279238005110 phosphorylation site [posttranslational modification] 279238005111 intermolecular recognition site; other site 279238005112 dimerization interface [polypeptide binding]; other site 279238005113 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 279238005114 DNA binding site [nucleotide binding] 279238005115 YHYH protein; Region: YHYH; pfam14240 279238005116 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 279238005117 MPT binding site; other site 279238005118 trimer interface [polypeptide binding]; other site 279238005119 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 279238005120 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 279238005121 N-acetyl-D-glucosamine binding site [chemical binding]; other site 279238005122 catalytic residue [active] 279238005123 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 279238005124 active site 279238005125 Fe-S cluster binding site [ion binding]; other site 279238005126 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 279238005127 hydroxyglutarate oxidase; Provisional; Region: PRK11728 279238005128 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 279238005129 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 279238005130 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 279238005131 N-formylglutamate amidohydrolase; Region: FGase; cl01522 279238005132 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 279238005133 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 279238005134 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 279238005135 putative substrate binding site [chemical binding]; other site 279238005136 putative ATP binding site [chemical binding]; other site 279238005137 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 279238005138 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 279238005139 S-adenosylmethionine binding site [chemical binding]; other site 279238005140 MAPEG family; Region: MAPEG; pfam01124 279238005141 MAPEG family; Region: MAPEG; pfam01124 279238005142 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 279238005143 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238005144 Protein of unknown function, DUF486; Region: DUF486; cl01236 279238005145 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 279238005146 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 279238005147 dimer interface [polypeptide binding]; other site 279238005148 active site 279238005149 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 279238005150 catalytic residues [active] 279238005151 substrate binding site [chemical binding]; other site 279238005152 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 279238005153 Beta-lactamase; Region: Beta-lactamase; pfam00144 279238005154 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 279238005155 active site 279238005156 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 279238005157 dimer interface [polypeptide binding]; other site 279238005158 catalytic residues [active] 279238005159 substrate binding site [chemical binding]; other site 279238005160 Uncharacterized conserved protein [Function unknown]; Region: COG3339 279238005161 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 279238005162 putative FMN binding site [chemical binding]; other site 279238005163 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 279238005164 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 279238005165 substrate-cofactor binding pocket; other site 279238005166 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279238005167 catalytic residue [active] 279238005168 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 279238005169 glutamate racemase; Provisional; Region: PRK00865 279238005170 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 279238005171 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 279238005172 DNA protecting protein DprA; Region: dprA; TIGR00732 279238005173 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 279238005174 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 279238005175 active site 279238005176 interdomain interaction site; other site 279238005177 putative metal-binding site [ion binding]; other site 279238005178 nucleotide binding site [chemical binding]; other site 279238005179 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 279238005180 domain I; other site 279238005181 DNA binding groove [nucleotide binding] 279238005182 phosphate binding site [ion binding]; other site 279238005183 domain II; other site 279238005184 domain III; other site 279238005185 nucleotide binding site [chemical binding]; other site 279238005186 catalytic site [active] 279238005187 domain IV; other site 279238005188 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 279238005189 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 279238005190 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 279238005191 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 279238005192 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 279238005193 SEST_like. A family of secreted SGNH-hydrolases similar to Streptomyces scabies esterase (SEST), a causal agent of the potato scab disease, which hydrolyzes a specific ester bond in suberin, a plant lipid. The tertiary fold of this enzyme is...; Region: SEST_like; cd01823 279238005194 active site 279238005195 catalytic triad [active] 279238005196 oxyanion hole [active] 279238005197 GTPase Era; Reviewed; Region: era; PRK00089 279238005198 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 279238005199 G1 box; other site 279238005200 GTP/Mg2+ binding site [chemical binding]; other site 279238005201 Switch I region; other site 279238005202 G2 box; other site 279238005203 Switch II region; other site 279238005204 G3 box; other site 279238005205 G4 box; other site 279238005206 G5 box; other site 279238005207 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 279238005208 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 279238005209 dimerization interface [polypeptide binding]; other site 279238005210 active site 279238005211 metal binding site [ion binding]; metal-binding site 279238005212 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 279238005213 dsRNA binding site [nucleotide binding]; other site 279238005214 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 279238005215 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 279238005216 Catalytic site [active] 279238005217 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 279238005218 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 279238005219 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 279238005220 active site 279238005221 dimer interface [polypeptide binding]; other site 279238005222 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 279238005223 dimer interface [polypeptide binding]; other site 279238005224 active site 279238005225 glutathione reductase; Validated; Region: PRK06116 279238005226 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 279238005227 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 279238005228 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 279238005229 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 279238005230 classical (c) SDR, subgroup 2; Region: SDR_c2; cd05370 279238005231 putative NAD(P) binding site [chemical binding]; other site 279238005232 active site 279238005233 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 279238005234 bacterial subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. This domain is found in a variety of oxidoreductases. Common features of all known members of this family, like sulfite oxidase and nitrite reductase, are that they...; Region: bact_SO_family_Moco; cd02108 279238005235 Moco binding site; other site 279238005236 metal coordination site [ion binding]; other site 279238005237 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 279238005238 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 279238005239 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 279238005240 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 279238005241 active site lid residues [active] 279238005242 substrate binding pocket [chemical binding]; other site 279238005243 catalytic residues [active] 279238005244 substrate-Mg2+ binding site; other site 279238005245 aspartate-rich region 1; other site 279238005246 aspartate-rich region 2; other site 279238005247 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 279238005248 phytoene desaturase; Region: crtI_fam; TIGR02734 279238005249 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 279238005250 lycopene cyclase family protein; Region: carotene-cycl; TIGR01790 279238005251 lycopene cyclase; Region: lycopene_cycl; TIGR01789 279238005252 hypothetical protein; Provisional; Region: PRK00944 279238005253 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 279238005254 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 279238005255 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 279238005256 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 279238005257 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 279238005258 Cytochrome P450; Region: p450; cl12078 279238005259 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 279238005260 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 279238005261 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 279238005262 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 279238005263 N-terminal plug; other site 279238005264 ligand-binding site [chemical binding]; other site 279238005265 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 279238005266 ThiC-associated domain; Region: ThiC-associated; pfam13667 279238005267 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 279238005268 Uncharacterized conserved protein [Function unknown]; Region: COG3791 279238005269 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 279238005270 PhnA protein; Region: PhnA; pfam03831 279238005271 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 279238005272 Predicted membrane protein [Function unknown]; Region: COG4270 279238005273 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 279238005274 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 279238005275 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 279238005276 trimer interface [polypeptide binding]; other site 279238005277 active site 279238005278 substrate binding site [chemical binding]; other site 279238005279 CoA binding site [chemical binding]; other site 279238005280 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 279238005281 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 279238005282 motif II; other site 279238005283 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 279238005284 catalytic triad [active] 279238005285 putative active site [active] 279238005286 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 279238005287 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 279238005288 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 279238005289 RNA/DNA hybrid binding site [nucleotide binding]; other site 279238005290 active site 279238005291 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 279238005292 DNA methylase; Region: N6_N4_Mtase; pfam01555 279238005293 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 279238005294 dihydropteroate synthase; Region: DHPS; TIGR01496 279238005295 substrate binding pocket [chemical binding]; other site 279238005296 dimer interface [polypeptide binding]; other site 279238005297 inhibitor binding site; inhibition site 279238005298 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 279238005299 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 279238005300 active site 279238005301 phosphorylation site [posttranslational modification] 279238005302 intermolecular recognition site; other site 279238005303 dimerization interface [polypeptide binding]; other site 279238005304 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 279238005305 Walker A motif; other site 279238005306 ATP binding site [chemical binding]; other site 279238005307 Walker B motif; other site 279238005308 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 279238005309 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 279238005310 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 279238005311 ligand binding site [chemical binding]; other site 279238005312 homodimer interface [polypeptide binding]; other site 279238005313 NAD(P) binding site [chemical binding]; other site 279238005314 trimer interface B [polypeptide binding]; other site 279238005315 trimer interface A [polypeptide binding]; other site 279238005316 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 279238005317 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 279238005318 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 279238005319 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 279238005320 aspartate racemase; Region: asp_race; TIGR00035 279238005321 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 279238005322 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 279238005323 Zn2+ binding site [ion binding]; other site 279238005324 Mg2+ binding site [ion binding]; other site 279238005325 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 279238005326 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238005327 NADH(P)-binding; Region: NAD_binding_10; pfam13460 279238005328 NAD(P) binding site [chemical binding]; other site 279238005329 active site 279238005330 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 279238005331 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 279238005332 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 279238005333 lipoyl attachment site [posttranslational modification]; other site 279238005334 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 279238005335 glycine dehydrogenase subunit 1; Validated; Region: PRK00451 279238005336 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 279238005337 catalytic residue [active] 279238005338 glycine dehydrogenase subunit 2; Validated; Region: PRK04366 279238005339 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 279238005340 catalytic residue [active] 279238005341 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 279238005342 EamA-like transporter family; Region: EamA; pfam00892 279238005343 EamA-like transporter family; Region: EamA; pfam00892 279238005344 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 279238005345 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 279238005346 Walker A motif; other site 279238005347 hexamer interface [polypeptide binding]; other site 279238005348 ATP binding site [chemical binding]; other site 279238005349 Walker B motif; other site 279238005350 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 279238005351 EamA-like transporter family; Region: EamA; pfam00892 279238005352 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 279238005353 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 279238005354 active site 279238005355 motif I; other site 279238005356 motif II; other site 279238005357 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 279238005358 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 279238005359 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 279238005360 active site 279238005361 catalytic residues [active] 279238005362 metal binding site [ion binding]; metal-binding site 279238005363 homodimer binding site [polypeptide binding]; other site 279238005364 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 279238005365 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 279238005366 ATP-grasp domain; Region: ATP-grasp_4; cl17255 279238005367 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 279238005368 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 279238005369 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 279238005370 carboxyltransferase (CT) interaction site; other site 279238005371 biotinylation site [posttranslational modification]; other site 279238005372 hypothetical protein; Provisional; Region: PRK02399 279238005373 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 279238005374 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 279238005375 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 279238005376 Bacterial transcriptional regulator; Region: IclR; pfam01614 279238005377 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 279238005378 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 279238005379 putative NAD(P) binding site [chemical binding]; other site 279238005380 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 279238005381 dimer interface [polypeptide binding]; other site 279238005382 substrate binding site [chemical binding]; other site 279238005383 metal binding site [ion binding]; metal-binding site 279238005384 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238005385 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 279238005386 putative substrate translocation pore; other site 279238005387 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 279238005388 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279238005389 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238005390 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 279238005391 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 279238005392 Cupin domain; Region: Cupin_2; cl17218 279238005393 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 279238005394 Rieske non-heme iron oxygenase (RO) family, Vanillate-O-demethylase oxygenase (VanA) and dicamba O-demethylase oxygenase (DdmC) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating...; Region: Rieske_RO_Alpha_VanA_DdmC; cd03532 279238005395 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 279238005396 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 279238005397 hydrophobic ligand binding site; other site 279238005398 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238005399 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279238005400 NAD(P) binding site [chemical binding]; other site 279238005401 active site 279238005402 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 279238005403 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH8; cd08262 279238005404 putative NAD(P) binding site [chemical binding]; other site 279238005405 catalytic Zn binding site [ion binding]; other site 279238005406 hypothetical protein; Provisional; Region: PRK06194 279238005407 classical (c) SDRs; Region: SDR_c; cd05233 279238005408 NAD(P) binding site [chemical binding]; other site 279238005409 active site 279238005410 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 279238005411 putative active site [active] 279238005412 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238005413 putative substrate translocation pore; other site 279238005414 Major Facilitator Superfamily; Region: MFS_1; pfam07690 279238005415 Melibiase; Region: Melibiase; pfam02065 279238005416 Glycosyl hydrolase family 68, includes levansucrase, beta-fructofuranosidase and inulosucrase; Region: GH68; cd08997 279238005417 active site 279238005418 Transcriptional regulators [Transcription]; Region: PurR; COG1609 279238005419 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 279238005420 DNA binding site [nucleotide binding] 279238005421 domain linker motif; other site 279238005422 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 279238005423 putative dimerization interface [polypeptide binding]; other site 279238005424 putative ligand binding site [chemical binding]; other site 279238005425 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238005426 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 279238005427 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 279238005428 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 279238005429 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 279238005430 TPR repeat; Region: TPR_11; pfam13414 279238005431 binding surface 279238005432 TPR motif; other site 279238005433 Putative 2OG-Fe(II) oxygenase; Region: 2OG-FeII_Oxy_5; pfam13759 279238005434 Glycosyl hydrolases family 32 N-terminal domain; Region: Glyco_hydro_32N; pfam00251 279238005435 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 279238005436 substrate binding [chemical binding]; other site 279238005437 active site 279238005438 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 279238005439 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 279238005440 GPH family sucrose/H+ symporter; Region: GPH_sucrose; TIGR01301 279238005441 Transcriptional regulators [Transcription]; Region: PurR; COG1609 279238005442 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 279238005443 DNA binding site [nucleotide binding] 279238005444 domain linker motif; other site 279238005445 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 279238005446 putative dimerization interface [polypeptide binding]; other site 279238005447 putative ligand binding site [chemical binding]; other site 279238005448 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 279238005449 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 279238005450 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 279238005451 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 279238005452 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 279238005453 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 279238005454 active site 279238005455 catalytic site [active] 279238005456 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 279238005457 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 279238005458 active site 279238005459 catalytic site [active] 279238005460 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 279238005461 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 279238005462 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 279238005463 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 279238005464 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 279238005465 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 279238005466 putative active site [active] 279238005467 phosphogluconate dehydratase; Validated; Region: PRK09054 279238005468 6-phosphogluconate dehydratase; Region: edd; TIGR01196 279238005469 glucokinase, proteobacterial type; Region: glk; TIGR00749 279238005470 Glucokinase; Region: Glucokinase; cl17310 279238005471 enoyl-CoA hydratase; Provisional; Region: PRK05981 279238005472 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 279238005473 substrate binding site [chemical binding]; other site 279238005474 oxyanion hole (OAH) forming residues; other site 279238005475 trimer interface [polypeptide binding]; other site 279238005476 Protein of unknown function, DUF488; Region: DUF488; pfam04343 279238005477 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 279238005478 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 279238005479 active site 279238005480 dimer interface [polypeptide binding]; other site 279238005481 metal binding site [ion binding]; metal-binding site 279238005482 shikimate kinase; Provisional; Region: PRK13946 279238005483 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 279238005484 magnesium binding site [ion binding]; other site 279238005485 putative shikimate binding site; other site 279238005486 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 279238005487 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 279238005488 active site 279238005489 DNA binding site [nucleotide binding] 279238005490 Int/Topo IB signature motif; other site 279238005491 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 279238005492 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; pfam03255 279238005493 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 279238005494 Peptidase family M48; Region: Peptidase_M48; pfam01435 279238005495 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 279238005496 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 279238005497 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 279238005498 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 279238005499 active site 279238005500 8-oxo-dGMP binding site [chemical binding]; other site 279238005501 nudix motif; other site 279238005502 metal binding site [ion binding]; metal-binding site 279238005503 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 279238005504 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 279238005505 tetramer interface [polypeptide binding]; other site 279238005506 TPP-binding site [chemical binding]; other site 279238005507 heterodimer interface [polypeptide binding]; other site 279238005508 phosphorylation loop region [posttranslational modification] 279238005509 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 279238005510 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 279238005511 E3 interaction surface; other site 279238005512 lipoyl attachment site [posttranslational modification]; other site 279238005513 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 279238005514 alpha subunit interface [polypeptide binding]; other site 279238005515 TPP binding site [chemical binding]; other site 279238005516 heterodimer interface [polypeptide binding]; other site 279238005517 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 279238005518 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 279238005519 TadE-like protein; Region: TadE; pfam07811 279238005520 TadE-like protein; Region: TadE; pfam07811 279238005521 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 279238005522 Ca2+ binding site [ion binding]; other site 279238005523 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 279238005524 Glucose inhibited division protein A; Region: GIDA; pfam01134 279238005525 YhhN-like protein; Region: YhhN; pfam07947 279238005526 Protein of unknown function (DUF952); Region: DUF952; pfam06108 279238005527 DNA gyrase subunit A; Validated; Region: PRK05560 279238005528 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 279238005529 CAP-like domain; other site 279238005530 active site 279238005531 primary dimer interface [polypeptide binding]; other site 279238005532 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 279238005533 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 279238005534 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 279238005535 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 279238005536 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 279238005537 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; cl00391 279238005538 active site clefts [active] 279238005539 zinc binding site [ion binding]; other site 279238005540 dimer interface [polypeptide binding]; other site 279238005541 lipoyl synthase; Provisional; Region: PRK05481 279238005542 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 279238005543 FeS/SAM binding site; other site 279238005544 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 279238005545 putative coenzyme Q binding site [chemical binding]; other site 279238005546 Competence-damaged protein; Region: CinA; pfam02464 279238005547 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 279238005548 substrate binding site; other site 279238005549 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 279238005550 dimer interface; other site 279238005551 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 279238005552 homotrimer interaction site [polypeptide binding]; other site 279238005553 zinc binding site [ion binding]; other site 279238005554 CDP-binding sites; other site 279238005555 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 279238005556 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 279238005557 FMN binding site [chemical binding]; other site 279238005558 active site 279238005559 catalytic residues [active] 279238005560 substrate binding site [chemical binding]; other site 279238005561 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 279238005562 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 279238005563 dimer interface [polypeptide binding]; other site 279238005564 phosphorylation site [posttranslational modification] 279238005565 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 279238005566 ATP binding site [chemical binding]; other site 279238005567 G-X-G motif; other site 279238005568 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 279238005569 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 279238005570 active site 279238005571 phosphorylation site [posttranslational modification] 279238005572 intermolecular recognition site; other site 279238005573 dimerization interface [polypeptide binding]; other site 279238005574 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 279238005575 Walker A motif; other site 279238005576 ATP binding site [chemical binding]; other site 279238005577 Walker B motif; other site 279238005578 arginine finger; other site 279238005579 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 279238005580 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 279238005581 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 279238005582 dimerization interface [polypeptide binding]; other site 279238005583 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 279238005584 dimer interface [polypeptide binding]; other site 279238005585 phosphorylation site [posttranslational modification] 279238005586 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 279238005587 ATP binding site [chemical binding]; other site 279238005588 Mg2+ binding site [ion binding]; other site 279238005589 G-X-G motif; other site 279238005590 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 279238005591 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 279238005592 active site 279238005593 phosphorylation site [posttranslational modification] 279238005594 intermolecular recognition site; other site 279238005595 dimerization interface [polypeptide binding]; other site 279238005596 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 279238005597 Walker A motif; other site 279238005598 ATP binding site [chemical binding]; other site 279238005599 Walker B motif; other site 279238005600 arginine finger; other site 279238005601 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 279238005602 RNA-binding protein Hfq; Provisional; Region: PRK14091 279238005603 bacterial Hfq-like; Region: Hfq; cd01716 279238005604 hexamer interface [polypeptide binding]; other site 279238005605 Sm1 motif; other site 279238005606 RNA binding site [nucleotide binding]; other site 279238005607 Sm2 motif; other site 279238005608 bacterial Hfq-like; Region: Hfq; cd01716 279238005609 hexamer interface [polypeptide binding]; other site 279238005610 Sm1 motif; other site 279238005611 RNA binding site [nucleotide binding]; other site 279238005612 Sm2 motif; other site 279238005613 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 279238005614 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 279238005615 HflX GTPase family; Region: HflX; cd01878 279238005616 G1 box; other site 279238005617 GTP/Mg2+ binding site [chemical binding]; other site 279238005618 Switch I region; other site 279238005619 G2 box; other site 279238005620 G3 box; other site 279238005621 Switch II region; other site 279238005622 G4 box; other site 279238005623 G5 box; other site 279238005624 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 279238005625 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 279238005626 homodimer interface [polypeptide binding]; other site 279238005627 metal binding site [ion binding]; metal-binding site 279238005628 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 279238005629 homodimer interface [polypeptide binding]; other site 279238005630 active site 279238005631 putative chemical substrate binding site [chemical binding]; other site 279238005632 metal binding site [ion binding]; metal-binding site 279238005633 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 279238005634 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 279238005635 Tn544A and related transposases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal catalytic domain. This CD includes various bacterial transposases similar to TnpA from transposon Tn554; Region: INT_Tn554A_C; cd01194 279238005636 Int/Topo IB signature motif; other site 279238005637 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 279238005638 active site 279238005639 DNA binding site [nucleotide binding] 279238005640 Int/Topo IB signature motif; other site 279238005641 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 279238005642 putative hydrolase; Provisional; Region: PRK02113 279238005643 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 279238005644 active site 279238005645 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 279238005646 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 279238005647 active site 279238005648 HIGH motif; other site 279238005649 KMSKS motif; other site 279238005650 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 279238005651 tRNA binding surface [nucleotide binding]; other site 279238005652 anticodon binding site; other site 279238005653 DNA polymerase III subunit delta'; Validated; Region: PRK07471 279238005654 DNA polymerase III subunit delta'; Validated; Region: PRK08485 279238005655 thymidylate kinase; Validated; Region: tmk; PRK00698 279238005656 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 279238005657 TMP-binding site; other site 279238005658 ATP-binding site [chemical binding]; other site 279238005659 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 279238005660 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 279238005661 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 279238005662 rare lipoprotein A; Provisional; Region: PRK10672 279238005663 Sporulation related domain; Region: SPOR; pfam05036 279238005664 Transglycosylase SLT domain; Region: SLT_2; pfam13406 279238005665 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 279238005666 N-acetyl-D-glucosamine binding site [chemical binding]; other site 279238005667 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 279238005668 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 279238005669 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 279238005670 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 279238005671 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 279238005672 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 279238005673 E3 interaction surface; other site 279238005674 lipoyl attachment site [posttranslational modification]; other site 279238005675 e3 binding domain; Region: E3_binding; pfam02817 279238005676 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 279238005677 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 279238005678 ribonuclease R; Region: RNase_R; TIGR02063 279238005679 RNB domain; Region: RNB; pfam00773 279238005680 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 279238005681 RNA binding site [nucleotide binding]; other site 279238005682 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 279238005683 metal binding site [ion binding]; metal-binding site 279238005684 prolyl-tRNA synthetase; Provisional; Region: PRK08661 279238005685 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_arch_euk; cd00778 279238005686 dimer interface [polypeptide binding]; other site 279238005687 motif 1; other site 279238005688 active site 279238005689 motif 2; other site 279238005690 motif 3; other site 279238005691 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 279238005692 anticodon binding site; other site 279238005693 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 279238005694 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 279238005695 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 279238005696 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 279238005697 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 279238005698 active site 279238005699 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 279238005700 dimer interface [polypeptide binding]; other site 279238005701 substrate binding site [chemical binding]; other site 279238005702 catalytic residues [active] 279238005703 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238005704 putative substrate translocation pore; other site 279238005705 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 279238005706 trimerization site [polypeptide binding]; other site 279238005707 active site 279238005708 Colicin V production protein; Region: Colicin_V; pfam02674 279238005709 DNA repair protein RadA; Provisional; Region: PRK11823 279238005710 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 279238005711 Walker A motif/ATP binding site; other site 279238005712 ATP binding site [chemical binding]; other site 279238005713 Walker B motif; other site 279238005714 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 279238005715 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 279238005716 active site 279238005717 dimerization interface [polypeptide binding]; other site 279238005718 elongation factor P; Validated; Region: PRK00529 279238005719 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 279238005720 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 279238005721 RNA binding site [nucleotide binding]; other site 279238005722 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 279238005723 RNA binding site [nucleotide binding]; other site 279238005724 Predicted membrane protein [Function unknown]; Region: COG1297 279238005725 putative oligopeptide transporter, OPT family; Region: TIGR00733 279238005726 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 279238005727 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 279238005728 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 279238005729 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 279238005730 thiamine phosphate binding site [chemical binding]; other site 279238005731 active site 279238005732 pyrophosphate binding site [ion binding]; other site 279238005733 Fructose-1.6-bisphosphate aldolase found in gram +/- bacteria; Region: FBP_aldolase_I_bact; cd00949 279238005734 putative active site [active] 279238005735 catalytic residue [active] 279238005736 Phosphoglycerate kinase; Region: PGK; pfam00162 279238005737 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 279238005738 substrate binding site [chemical binding]; other site 279238005739 hinge regions; other site 279238005740 ADP binding site [chemical binding]; other site 279238005741 catalytic site [active] 279238005742 MOSC domain; Region: MOSC; pfam03473 279238005743 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 279238005744 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 279238005745 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 279238005746 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 279238005747 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 279238005748 TPP-binding site [chemical binding]; other site 279238005749 dimer interface [polypeptide binding]; other site 279238005750 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 279238005751 PYR/PP interface [polypeptide binding]; other site 279238005752 dimer interface [polypeptide binding]; other site 279238005753 TPP binding site [chemical binding]; other site 279238005754 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 279238005755 Cell division protein ZapA; Region: ZapA; pfam05164 279238005756 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 279238005757 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 279238005758 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 279238005759 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 279238005760 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 279238005761 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 279238005762 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 279238005763 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 279238005764 E3 interaction surface; other site 279238005765 lipoyl attachment site [posttranslational modification]; other site 279238005766 e3 binding domain; Region: E3_binding; pfam02817 279238005767 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 279238005768 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 279238005769 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 279238005770 alpha subunit interface [polypeptide binding]; other site 279238005771 TPP binding site [chemical binding]; other site 279238005772 heterodimer interface [polypeptide binding]; other site 279238005773 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 279238005774 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 279238005775 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 279238005776 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 279238005777 tetramer interface [polypeptide binding]; other site 279238005778 TPP-binding site [chemical binding]; other site 279238005779 heterodimer interface [polypeptide binding]; other site 279238005780 phosphorylation loop region [posttranslational modification] 279238005781 Thymidylate synthase; Region: Thymidylat_synt; pfam00303 279238005782 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 279238005783 dimerization interface [polypeptide binding]; other site 279238005784 active site 279238005785 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 279238005786 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 279238005787 ssDNA binding site; other site 279238005788 generic binding surface II; other site 279238005789 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 279238005790 ATP binding site [chemical binding]; other site 279238005791 putative Mg++ binding site [ion binding]; other site 279238005792 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 279238005793 nucleotide binding region [chemical binding]; other site 279238005794 ATP-binding site [chemical binding]; other site 279238005795 Protein required for attachment to host cells; Region: Host_attach; cl02398 279238005796 Flavinator of succinate dehydrogenase; Region: Sdh5; pfam03937 279238005797 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 279238005798 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 279238005799 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 279238005800 ATP binding site [chemical binding]; other site 279238005801 putative Mg++ binding site [ion binding]; other site 279238005802 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 279238005803 nucleotide binding region [chemical binding]; other site 279238005804 ATP-binding site [chemical binding]; other site 279238005805 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 279238005806 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 279238005807 metal binding site [ion binding]; metal-binding site 279238005808 active site 279238005809 I-site; other site 279238005810 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 279238005811 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 279238005812 ATP-NAD kinase; Region: NAD_kinase; pfam01513 279238005813 CHAT domain; Region: CHAT; pfam12770 279238005814 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 279238005815 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 279238005816 Surface antigen; Region: Bac_surface_Ag; pfam01103 279238005817 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 279238005818 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 279238005819 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 279238005820 SEC-C motif; Region: SEC-C; pfam02810 279238005821 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 279238005822 heterotetramer interface [polypeptide binding]; other site 279238005823 active site pocket [active] 279238005824 cleavage site 279238005825 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 279238005826 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 279238005827 putative C-terminal domain interface [polypeptide binding]; other site 279238005828 putative GSH binding site (G-site) [chemical binding]; other site 279238005829 putative dimer interface [polypeptide binding]; other site 279238005830 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 279238005831 N-terminal domain interface [polypeptide binding]; other site 279238005832 dimer interface [polypeptide binding]; other site 279238005833 substrate binding pocket (H-site) [chemical binding]; other site 279238005834 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 279238005835 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 279238005836 active site 279238005837 putative lithium-binding site [ion binding]; other site 279238005838 substrate binding site [chemical binding]; other site 279238005839 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 279238005840 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 279238005841 catalytic residues [active] 279238005842 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 279238005843 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 279238005844 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 279238005845 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 279238005846 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 279238005847 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 279238005848 Substrate binding site; other site 279238005849 metal-binding site 279238005850 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 279238005851 Phosphotransferase enzyme family; Region: APH; pfam01636 279238005852 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 279238005853 PAS fold; Region: PAS_7; pfam12860 279238005854 PAS fold; Region: PAS_7; pfam12860 279238005855 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 279238005856 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 279238005857 dimer interface [polypeptide binding]; other site 279238005858 phosphorylation site [posttranslational modification] 279238005859 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 279238005860 ATP binding site [chemical binding]; other site 279238005861 Mg2+ binding site [ion binding]; other site 279238005862 G-X-G motif; other site 279238005863 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 279238005864 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 279238005865 homotetramer interface [polypeptide binding]; other site 279238005866 ligand binding site [chemical binding]; other site 279238005867 catalytic site [active] 279238005868 NAD binding site [chemical binding]; other site 279238005869 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 279238005870 catalytic triad [active] 279238005871 dimer interface [polypeptide binding]; other site 279238005872 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 279238005873 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 279238005874 GTP cyclohydrolase I; Provisional; Region: PLN03044 279238005875 active site 279238005876 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 279238005877 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 279238005878 putative active site [active] 279238005879 putative active site [active] 279238005880 catalytic site [active] 279238005881 catalytic site [active] 279238005882 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 279238005883 PLD-like domain; Region: PLDc_2; pfam13091 279238005884 putative active site [active] 279238005885 catalytic site [active] 279238005886 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 279238005887 S-adenosylmethionine binding site [chemical binding]; other site 279238005888 Septum formation initiator; Region: DivIC; cl17659 279238005889 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 279238005890 nitrilase; Region: PLN02798 279238005891 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 279238005892 putative active site [active] 279238005893 catalytic triad [active] 279238005894 dimer interface [polypeptide binding]; other site 279238005895 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 279238005896 GSH binding site [chemical binding]; other site 279238005897 catalytic residues [active] 279238005898 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 279238005899 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 279238005900 putative dimer interface [polypeptide binding]; other site 279238005901 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 279238005902 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 279238005903 Walker A/P-loop; other site 279238005904 ATP binding site [chemical binding]; other site 279238005905 ABC transporter signature motif; other site 279238005906 Walker B; other site 279238005907 D-loop; other site 279238005908 H-loop/switch region; other site 279238005909 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 279238005910 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 279238005911 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 279238005912 ligand binding site [chemical binding]; other site 279238005913 flexible hinge region; other site 279238005914 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 279238005915 putative switch regulator; other site 279238005916 non-specific DNA interactions [nucleotide binding]; other site 279238005917 DNA binding site [nucleotide binding] 279238005918 sequence specific DNA binding site [nucleotide binding]; other site 279238005919 putative cAMP binding site [chemical binding]; other site 279238005920 CTP synthetase; Validated; Region: pyrG; PRK05380 279238005921 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 279238005922 Catalytic site [active] 279238005923 active site 279238005924 UTP binding site [chemical binding]; other site 279238005925 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 279238005926 active site 279238005927 putative oxyanion hole; other site 279238005928 catalytic triad [active] 279238005929 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 279238005930 substrate binding site [chemical binding]; other site 279238005931 dimer interface [polypeptide binding]; other site 279238005932 catalytic triad [active] 279238005933 SurA N-terminal domain; Region: SurA_N_3; cl07813 279238005934 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 279238005935 anthranilate synthase component I; Provisional; Region: PRK13573 279238005936 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 279238005937 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 279238005938 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 279238005939 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 279238005940 glutamine binding [chemical binding]; other site 279238005941 catalytic triad [active] 279238005942 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 279238005943 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 279238005944 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 279238005945 active site 279238005946 ribulose/triose binding site [chemical binding]; other site 279238005947 phosphate binding site [ion binding]; other site 279238005948 substrate (anthranilate) binding pocket [chemical binding]; other site 279238005949 product (indole) binding pocket [chemical binding]; other site 279238005950 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 279238005951 Beta-lactamase; Region: Beta-lactamase; pfam00144 279238005952 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 279238005953 putative metal binding site [ion binding]; other site 279238005954 Uncharacterized conserved protein [Function unknown]; Region: COG1432 279238005955 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 279238005956 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 279238005957 trimer interface [polypeptide binding]; other site 279238005958 dimer interface [polypeptide binding]; other site 279238005959 putative active site [active] 279238005960 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 279238005961 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 279238005962 dimer interface [polypeptide binding]; other site 279238005963 putative functional site; other site 279238005964 putative MPT binding site; other site 279238005965 LexA repressor; Validated; Region: PRK00215 279238005966 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 279238005967 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 279238005968 Catalytic site [active] 279238005969 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 279238005970 Competence protein; Region: Competence; pfam03772 279238005971 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 279238005972 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 279238005973 active site 279238005974 HIGH motif; other site 279238005975 nucleotide binding site [chemical binding]; other site 279238005976 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 279238005977 active site 279238005978 KMSKS motif; other site 279238005979 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 279238005980 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 279238005981 dimer interface [polypeptide binding]; other site 279238005982 active site 279238005983 citrylCoA binding site [chemical binding]; other site 279238005984 NADH binding [chemical binding]; other site 279238005985 cationic pore residues; other site 279238005986 oxalacetate/citrate binding site [chemical binding]; other site 279238005987 coenzyme A binding site [chemical binding]; other site 279238005988 catalytic triad [active] 279238005989 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 279238005990 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 279238005991 ATP binding site [chemical binding]; other site 279238005992 Mg2+ binding site [ion binding]; other site 279238005993 G-X-G motif; other site 279238005994 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 279238005995 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 279238005996 Fe-S cluster binding site [ion binding]; other site 279238005997 active site 279238005998 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 279238005999 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 279238006000 FeS/SAM binding site; other site 279238006001 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 279238006002 amino acid transporter; Region: 2A0306; TIGR00909 279238006003 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 279238006004 oligomerization interface [polypeptide binding]; other site 279238006005 active site 279238006006 metal binding site [ion binding]; metal-binding site 279238006007 hypothetical protein; Provisional; Region: PRK14013 279238006008 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 279238006009 CoA-transferase family III; Region: CoA_transf_3; pfam02515 279238006010 TPR repeat; Region: TPR_11; pfam13414 279238006011 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 279238006012 binding surface 279238006013 TPR motif; other site 279238006014 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 279238006015 TPR motif; other site 279238006016 binding surface 279238006017 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 279238006018 binding surface 279238006019 TPR motif; other site 279238006020 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 279238006021 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 279238006022 active site 279238006023 phosphorylation site [posttranslational modification] 279238006024 intermolecular recognition site; other site 279238006025 dimerization interface [polypeptide binding]; other site 279238006026 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 279238006027 Walker A motif; other site 279238006028 ATP binding site [chemical binding]; other site 279238006029 Walker B motif; other site 279238006030 arginine finger; other site 279238006031 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 279238006032 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 279238006033 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 279238006034 ATP binding site [chemical binding]; other site 279238006035 Mg2+ binding site [ion binding]; other site 279238006036 G-X-G motif; other site 279238006037 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 279238006038 Bacterial sugar transferase; Region: Bac_transf; pfam02397 279238006039 patatin-related protein; Region: TIGR03607 279238006040 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 279238006041 chaperone protein DnaJ; Provisional; Region: PRK10767 279238006042 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 279238006043 HSP70 interaction site [polypeptide binding]; other site 279238006044 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 279238006045 substrate binding site [polypeptide binding]; other site 279238006046 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 279238006047 Zn binding sites [ion binding]; other site 279238006048 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 279238006049 dimer interface [polypeptide binding]; other site 279238006050 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 279238006051 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 279238006052 nucleotide binding site [chemical binding]; other site 279238006053 NEF interaction site [polypeptide binding]; other site 279238006054 SBD interface [polypeptide binding]; other site 279238006055 Protein of unknown function (DUF461); Region: DUF461; pfam04314 279238006056 Isochorismatase family; Region: Isochorismatase; pfam00857 279238006057 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 279238006058 catalytic triad [active] 279238006059 conserved cis-peptide bond; other site 279238006060 heat shock protein GrpE; Provisional; Region: PRK14141 279238006061 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 279238006062 dimer interface [polypeptide binding]; other site 279238006063 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 279238006064 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 279238006065 Ribonuclease PH; Region: RNase_PH_bact; cd11362 279238006066 ribonuclease PH; Reviewed; Region: rph; PRK00173 279238006067 hexamer interface [polypeptide binding]; other site 279238006068 active site 279238006069 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 279238006070 active site 279238006071 dimerization interface [polypeptide binding]; other site 279238006072 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 279238006073 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 279238006074 FeS/SAM binding site; other site 279238006075 HemN C-terminal domain; Region: HemN_C; pfam06969 279238006076 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 279238006077 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 279238006078 active site 279238006079 DNA binding site [nucleotide binding] 279238006080 Int/Topo IB signature motif; other site 279238006081 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 279238006082 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 279238006083 ATP binding site [chemical binding]; other site 279238006084 Mg2+ binding site [ion binding]; other site 279238006085 G-X-G motif; other site 279238006086 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 279238006087 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 279238006088 active site 279238006089 phosphorylation site [posttranslational modification] 279238006090 intermolecular recognition site; other site 279238006091 dimerization interface [polypeptide binding]; other site 279238006092 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 279238006093 DNA binding site [nucleotide binding] 279238006094 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 279238006095 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 279238006096 ABC transporter ATPase component; Reviewed; Region: PRK11147 279238006097 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 279238006098 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 279238006099 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 279238006100 non-specific DNA binding site [nucleotide binding]; other site 279238006101 salt bridge; other site 279238006102 sequence-specific DNA binding site [nucleotide binding]; other site 279238006103 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 279238006104 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 279238006105 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 279238006106 Protein export membrane protein; Region: SecD_SecF; pfam02355 279238006107 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 279238006108 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 279238006109 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 279238006110 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 279238006111 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 279238006112 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 279238006113 Dehydroquinase class II; Region: DHquinase_II; pfam01220 279238006114 trimer interface [polypeptide binding]; other site 279238006115 active site 279238006116 dimer interface [polypeptide binding]; other site 279238006117 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 279238006118 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 279238006119 carboxyltransferase (CT) interaction site; other site 279238006120 biotinylation site [posttranslational modification]; other site 279238006121 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 279238006122 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 279238006123 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 279238006124 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 279238006125 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 279238006126 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 279238006127 glutathione synthetase; Provisional; Region: PRK05246 279238006128 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 279238006129 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 279238006130 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 279238006131 Predicted methyltransferases [General function prediction only]; Region: COG0313 279238006132 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 279238006133 putative SAM binding site [chemical binding]; other site 279238006134 putative homodimer interface [polypeptide binding]; other site 279238006135 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 279238006136 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 279238006137 putative ligand binding site [chemical binding]; other site 279238006138 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 279238006139 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 279238006140 Mg2+ binding site [ion binding]; other site 279238006141 G-X-G motif; other site 279238006142 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 279238006143 anchoring element; other site 279238006144 dimer interface [polypeptide binding]; other site 279238006145 ATP binding site [chemical binding]; other site 279238006146 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 279238006147 active site 279238006148 putative metal-binding site [ion binding]; other site 279238006149 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 279238006150 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 279238006151 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 279238006152 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 279238006153 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 279238006154 Walker A motif; other site 279238006155 ATP binding site [chemical binding]; other site 279238006156 Walker B motif; other site 279238006157 arginine finger; other site 279238006158 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 279238006159 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 279238006160 C-terminal domain interface [polypeptide binding]; other site 279238006161 GSH binding site (G-site) [chemical binding]; other site 279238006162 dimer interface [polypeptide binding]; other site 279238006163 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 279238006164 N-terminal domain interface [polypeptide binding]; other site 279238006165 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 279238006166 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 279238006167 enoyl-CoA hydratase; Validated; Region: PRK08139 279238006168 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 279238006169 substrate binding site [chemical binding]; other site 279238006170 oxyanion hole (OAH) forming residues; other site 279238006171 trimer interface [polypeptide binding]; other site 279238006172 citrate-proton symporter; Provisional; Region: PRK15075 279238006173 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238006174 putative substrate translocation pore; other site 279238006175 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 279238006176 Domon-like domain of UDP-N-acetylenolpyruvoylglucosamine reductase; Region: DOMON_murB_like; cd09627 279238006177 putative heme binding site [chemical binding]; other site 279238006178 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 279238006179 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 279238006180 active site 279238006181 HIGH motif; other site 279238006182 dimer interface [polypeptide binding]; other site 279238006183 KMSKS motif; other site 279238006184 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 279238006185 RNA binding surface [nucleotide binding]; other site 279238006186 PilZ domain; Region: PilZ; pfam07238 279238006187 H+ Antiporter protein; Region: 2A0121; TIGR00900 279238006188 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238006189 putative substrate translocation pore; other site 279238006190 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 279238006191 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 279238006192 dimer interface [polypeptide binding]; other site 279238006193 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279238006194 catalytic residue [active] 279238006195 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 279238006196 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 279238006197 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 279238006198 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 279238006199 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 279238006200 active site 279238006201 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 279238006202 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 279238006203 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 279238006204 DNA binding residues [nucleotide binding] 279238006205 putative dimer interface [polypeptide binding]; other site 279238006206 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 279238006207 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 279238006208 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 279238006209 active site 279238006210 Methyltransferase domain; Region: Methyltransf_23; pfam13489 279238006211 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 279238006212 pyruvate phosphate dikinase; Provisional; Region: PRK09279 279238006213 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 279238006214 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 279238006215 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 279238006216 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 279238006217 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 279238006218 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 279238006219 dimer interface [polypeptide binding]; other site 279238006220 motif 1; other site 279238006221 active site 279238006222 motif 2; other site 279238006223 motif 3; other site 279238006224 TraB family; Region: TraB; pfam01963 279238006225 TraB family; Region: TraB; pfam01963 279238006226 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 279238006227 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 279238006228 5S rRNA interface [nucleotide binding]; other site 279238006229 CTC domain interface [polypeptide binding]; other site 279238006230 L16 interface [polypeptide binding]; other site 279238006231 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 279238006232 putative active site [active] 279238006233 catalytic residue [active] 279238006234 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 279238006235 TPR repeat; Region: TPR_11; pfam13414 279238006236 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 279238006237 TPR motif; other site 279238006238 TPR repeat; Region: TPR_11; pfam13414 279238006239 binding surface 279238006240 GTP-binding protein YchF; Reviewed; Region: PRK09601 279238006241 YchF GTPase; Region: YchF; cd01900 279238006242 G1 box; other site 279238006243 GTP/Mg2+ binding site [chemical binding]; other site 279238006244 Switch I region; other site 279238006245 G2 box; other site 279238006246 Switch II region; other site 279238006247 G3 box; other site 279238006248 G4 box; other site 279238006249 G5 box; other site 279238006250 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 279238006251 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 279238006252 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 279238006253 DNA binding residues [nucleotide binding] 279238006254 dimer interface [polypeptide binding]; other site 279238006255 mercury binding site [ion binding]; other site 279238006256 Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]; Region: GrxC; COG0695 279238006257 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 279238006258 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 279238006259 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 279238006260 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 279238006261 putative active site [active] 279238006262 putative catalytic site [active] 279238006263 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 279238006264 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 279238006265 ATP binding site [chemical binding]; other site 279238006266 Mg2+ binding site [ion binding]; other site 279238006267 G-X-G motif; other site 279238006268 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 279238006269 ATP binding site [chemical binding]; other site 279238006270 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 279238006271 rod shape-determining protein MreB; Provisional; Region: PRK13927 279238006272 MreB and similar proteins; Region: MreB_like; cd10225 279238006273 nucleotide binding site [chemical binding]; other site 279238006274 Mg binding site [ion binding]; other site 279238006275 putative protofilament interaction site [polypeptide binding]; other site 279238006276 RodZ interaction site [polypeptide binding]; other site 279238006277 rod shape-determining protein MreC; Provisional; Region: PRK13922 279238006278 rod shape-determining protein MreC; Region: MreC; pfam04085 279238006279 rod shape-determining protein MreD; Region: MreD; cl01087 279238006280 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 279238006281 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 279238006282 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 279238006283 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 279238006284 Protein of unknown function, DUF; Region: DUF411; cl01142 279238006285 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 279238006286 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 279238006287 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 279238006288 Multicopper oxidase; Region: Cu-oxidase; pfam00394 279238006289 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 279238006290 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 279238006291 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279238006292 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 279238006293 DNA binding residues [nucleotide binding] 279238006294 CopC domain; Region: CopC; pfam04234 279238006295 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 279238006296 Uncharacterized conserved protein [Function unknown]; Region: COG3350 279238006297 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 279238006298 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 279238006299 Soluble P-type ATPase [General function prediction only]; Region: COG4087 279238006300 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 279238006301 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 279238006302 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 279238006303 DNA binding residues [nucleotide binding] 279238006304 dimer interface [polypeptide binding]; other site 279238006305 copper binding site [ion binding]; other site 279238006306 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 279238006307 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 279238006308 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 279238006309 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 279238006310 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 279238006311 HlyD family secretion protein; Region: HlyD_3; pfam13437 279238006312 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 279238006313 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 279238006314 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 279238006315 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 279238006316 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 279238006317 DNA binding residues [nucleotide binding] 279238006318 dimer interface [polypeptide binding]; other site 279238006319 putative metal binding site [ion binding]; other site 279238006320 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 279238006321 TraL protein; Region: TraL; pfam07178 279238006322 TraE protein; Region: TraE; pfam05309 279238006323 TraK protein; Region: TraK; pfam06586 279238006324 conjugal transfer protein TraK; Provisional; Region: PRK13736; cl05878 279238006325 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 279238006326 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 279238006327 dimerization domain [polypeptide binding]; other site 279238006328 dimer interface [polypeptide binding]; other site 279238006329 catalytic residues [active] 279238006330 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 279238006331 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 279238006332 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 279238006333 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; cd01983 279238006334 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 279238006335 Type-F conjugative transfer system protein (TrbI_Ftype); Region: TrbI_Ftype; cl11515 279238006336 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 279238006337 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 279238006338 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 279238006339 TraU protein; Region: TraU; pfam06834 279238006340 conjugal transfer protein TrbB; Provisional; Region: PRK13728; cl17283 279238006341 F plasmid transfer operon protein; Region: TraF; pfam13728 279238006342 Conjugative relaxosome accessory transposon protein; Region: TraH; pfam06122 279238006343 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 279238006344 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_a; cd09179 279238006345 PLD-like domain; Region: PLDc_2; pfam13091 279238006346 putative active site [active] 279238006347 catalytic site [active] 279238006348 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 279238006349 ATP binding site [chemical binding]; other site 279238006350 putative Mg++ binding site [ion binding]; other site 279238006351 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 279238006352 nucleotide binding region [chemical binding]; other site 279238006353 ATP-binding site [chemical binding]; other site 279238006354 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 279238006355 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 279238006356 Protein of unknown function (DUF3780); Region: DUF3780; pfam12635 279238006357 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 279238006358 Protein of unknown function (DUF499); Region: DUF499; pfam04465 279238006359 WYL domain; Region: WYL; pfam13280 279238006360 Predicted transcriptional regulator [Transcription]; Region: COG2932 279238006361 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 279238006362 Catalytic site [active] 279238006363 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 279238006364 TrwC relaxase; Region: TrwC; pfam08751 279238006365 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 279238006366 AAA domain; Region: AAA_30; pfam13604 279238006367 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 279238006368 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 279238006369 Walker A motif; other site 279238006370 ATP binding site [chemical binding]; other site 279238006371 Walker B motif; other site 279238006372 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 279238006373 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 279238006374 dimer interface [polypeptide binding]; other site 279238006375 ssDNA binding site [nucleotide binding]; other site 279238006376 tetramer (dimer of dimers) interface [polypeptide binding]; other site 279238006377 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 279238006378 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 279238006379 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 279238006380 putative active site [active] 279238006381 putative NTP binding site [chemical binding]; other site 279238006382 putative nucleic acid binding site [nucleotide binding]; other site 279238006383 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 279238006384 Type II intron maturase; Region: Intron_maturas2; pfam01348 279238006385 ParB-like nuclease domain; Region: ParBc; pfam02195 279238006386 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 279238006387 DNA protecting protein DprA; Region: dprA; TIGR00732 279238006388 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 279238006389 DNA protecting protein DprA; Region: dprA; TIGR00732 279238006390 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 279238006391 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 279238006392 motif II; other site 279238006393 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 279238006394 active site 279238006395 Domain of unknown function (DUF955); Region: DUF955; cl01076 279238006396 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 279238006397 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 279238006398 non-specific DNA binding site [nucleotide binding]; other site 279238006399 salt bridge; other site 279238006400 sequence-specific DNA binding site [nucleotide binding]; other site 279238006401 RES domain; Region: RES; smart00953 279238006402 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 279238006403 S-adenosylmethionine binding site [chemical binding]; other site 279238006404 P-loop containing NTP hydrolase pore-1; Region: AAA_34; pfam13872 279238006405 Helicase_C-like; Region: Helicase_C_4; pfam13871 279238006406 CHC2 zinc finger; Region: zf-CHC2; cl17510 279238006407 Toprim domain; Region: Toprim_3; pfam13362 279238006408 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 279238006409 N-acetyl-D-glucosamine binding site [chemical binding]; other site 279238006410 catalytic residue [active] 279238006411 integrase; Provisional; Region: PRK09692 279238006412 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 279238006413 active site 279238006414 DNA binding site [nucleotide binding] 279238006415 Int/Topo IB signature motif; other site 279238006416 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_9; cd07826 279238006417 putative hydrophobic ligand binding site [chemical binding]; other site 279238006418 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 279238006419 dimerization interface [polypeptide binding]; other site 279238006420 putative DNA binding site [nucleotide binding]; other site 279238006421 putative Zn2+ binding site [ion binding]; other site 279238006422 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 279238006423 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238006424 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 279238006425 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 279238006426 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 279238006427 homopentamer interface [polypeptide binding]; other site 279238006428 active site 279238006429 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 279238006430 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 279238006431 Ecdysteroid kinase; Region: EcKinase; cl17738 279238006432 Phosphotransferase enzyme family; Region: APH; pfam01636 279238006433 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 279238006434 enolase; Provisional; Region: eno; PRK00077 279238006435 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 279238006436 dimer interface [polypeptide binding]; other site 279238006437 metal binding site [ion binding]; metal-binding site 279238006438 substrate binding pocket [chemical binding]; other site 279238006439 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 279238006440 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 279238006441 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 279238006442 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 279238006443 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 279238006444 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 279238006445 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 279238006446 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 279238006447 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 279238006448 ATP-grasp domain; Region: ATP-grasp_4; cl17255 279238006449 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 279238006450 IMP binding site; other site 279238006451 dimer interface [polypeptide binding]; other site 279238006452 partial ornithine binding site; other site 279238006453 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 279238006454 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 279238006455 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 279238006456 catalytic site [active] 279238006457 subunit interface [polypeptide binding]; other site 279238006458 Yqey-like protein; Region: YqeY; pfam09424 279238006459 DNA primase, catalytic core; Region: dnaG; TIGR01391 279238006460 CHC2 zinc finger; Region: zf-CHC2; pfam01807 279238006461 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 279238006462 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 279238006463 active site 279238006464 metal binding site [ion binding]; metal-binding site 279238006465 interdomain interaction site; other site 279238006466 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 279238006467 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 279238006468 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 279238006469 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 279238006470 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 279238006471 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279238006472 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 279238006473 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 279238006474 DNA binding residues [nucleotide binding] 279238006475 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 279238006476 hypothetical protein; Provisional; Region: PRK00872 279238006477 hypothetical protein; Provisional; Region: PRK07538 279238006478 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 279238006479 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 279238006480 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 279238006481 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 279238006482 dimer interface [polypeptide binding]; other site 279238006483 active site 279238006484 glycine-pyridoxal phosphate binding site [chemical binding]; other site 279238006485 folate binding site [chemical binding]; other site 279238006486 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 279238006487 ATP cone domain; Region: ATP-cone; pfam03477 279238006488 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 279238006489 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 279238006490 Chorismate mutase type II; Region: CM_2; smart00830 279238006491 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 279238006492 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 279238006493 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 279238006494 RNA binding surface [nucleotide binding]; other site 279238006495 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 279238006496 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 279238006497 Predicted permeases [General function prediction only]; Region: COG0730 279238006498 hypothetical protein; Provisional; Region: PRK10621 279238006499 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 279238006500 Cytochrome P450; Region: p450; cl12078 279238006501 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 279238006502 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 279238006503 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 279238006504 active site 279238006505 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 279238006506 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 279238006507 active site 279238006508 (T/H)XGH motif; other site 279238006509 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 279238006510 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 279238006511 substrate binding pocket [chemical binding]; other site 279238006512 chain length determination region; other site 279238006513 substrate-Mg2+ binding site; other site 279238006514 catalytic residues [active] 279238006515 aspartate-rich region 1; other site 279238006516 active site lid residues [active] 279238006517 aspartate-rich region 2; other site 279238006518 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 279238006519 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 279238006520 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 279238006521 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 279238006522 dimerization interface [polypeptide binding]; other site 279238006523 ATP binding site [chemical binding]; other site 279238006524 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 279238006525 dimerization interface [polypeptide binding]; other site 279238006526 ATP binding site [chemical binding]; other site 279238006527 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 279238006528 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 279238006529 phosphoserine phosphatase SerB; Region: serB; TIGR00338 279238006530 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 279238006531 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 279238006532 motif II; other site 279238006533 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 279238006534 IPP transferase; Region: IPPT; pfam01715 279238006535 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 279238006536 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 279238006537 PYR/PP interface [polypeptide binding]; other site 279238006538 dimer interface [polypeptide binding]; other site 279238006539 TPP binding site [chemical binding]; other site 279238006540 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 279238006541 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 279238006542 TPP-binding site [chemical binding]; other site 279238006543 dimer interface [polypeptide binding]; other site 279238006544 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 279238006545 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 279238006546 putative valine binding site [chemical binding]; other site 279238006547 dimer interface [polypeptide binding]; other site 279238006548 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 279238006549 ketol-acid reductoisomerase; Provisional; Region: PRK05479 279238006550 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 279238006551 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 279238006552 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 279238006553 Uncharacterized conserved protein [Function unknown]; Region: COG2353 279238006554 Epoxide hydrolase N terminus; Region: EHN; pfam06441 279238006555 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 279238006556 2-isopropylmalate synthase; Validated; Region: PRK03739 279238006557 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 279238006558 active site 279238006559 catalytic residues [active] 279238006560 metal binding site [ion binding]; metal-binding site 279238006561 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 279238006562 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 279238006563 Amidohydrolase; Region: Amidohydro_2; pfam04909 279238006564 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 279238006565 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 279238006566 FMN binding site [chemical binding]; other site 279238006567 substrate binding site [chemical binding]; other site 279238006568 putative catalytic residue [active] 279238006569 A nuclease family of the HNH/ENDO VII superfamily with conserved AHH; Region: AHH; pfam14412 279238006570 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 279238006571 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 279238006572 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 279238006573 DHH family; Region: DHH; pfam01368 279238006574 DHHA1 domain; Region: DHHA1; pfam02272 279238006575 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 279238006576 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 279238006577 dimer interface [polypeptide binding]; other site 279238006578 phosphorylation site [posttranslational modification] 279238006579 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 279238006580 ATP binding site [chemical binding]; other site 279238006581 Mg2+ binding site [ion binding]; other site 279238006582 G-X-G motif; other site 279238006583 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 279238006584 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 279238006585 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 279238006586 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 279238006587 dimer interface [polypeptide binding]; other site 279238006588 conserved gate region; other site 279238006589 putative PBP binding loops; other site 279238006590 ABC-ATPase subunit interface; other site 279238006591 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 279238006592 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 279238006593 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 279238006594 dimer interface [polypeptide binding]; other site 279238006595 conserved gate region; other site 279238006596 putative PBP binding loops; other site 279238006597 ABC-ATPase subunit interface; other site 279238006598 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 279238006599 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 279238006600 Walker A/P-loop; other site 279238006601 ATP binding site [chemical binding]; other site 279238006602 Q-loop/lid; other site 279238006603 ABC transporter signature motif; other site 279238006604 Walker B; other site 279238006605 D-loop; other site 279238006606 H-loop/switch region; other site 279238006607 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 279238006608 PhoU domain; Region: PhoU; pfam01895 279238006609 PhoU domain; Region: PhoU; pfam01895 279238006610 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 279238006611 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 279238006612 active site 279238006613 phosphorylation site [posttranslational modification] 279238006614 intermolecular recognition site; other site 279238006615 dimerization interface [polypeptide binding]; other site 279238006616 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 279238006617 DNA binding site [nucleotide binding] 279238006618 Alg9-like mannosyltransferase family; Region: Glyco_transf_22; cl17751 279238006619 Protein of unknown function (DUF1467); Region: DUF1467; pfam07330 279238006620 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 279238006621 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 279238006622 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 279238006623 pantothenate kinase; Reviewed; Region: PRK13318 279238006624 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 279238006625 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 279238006626 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 279238006627 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 279238006628 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 279238006629 NAD(P)H-quinone oxidoreductase subunit M; Validated; Region: PRK07363 279238006630 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 279238006631 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 279238006632 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 279238006633 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 279238006634 NADH dehydrogenase subunit 5 C-terminus; Region: NADH5_C; pfam06455 279238006635 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 279238006636 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 279238006637 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 279238006638 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 279238006639 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 279238006640 4Fe-4S binding domain; Region: Fer4; pfam00037 279238006641 4Fe-4S binding domain; Region: Fer4; pfam00037 279238006642 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 279238006643 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 279238006644 NADH dehydrogenase subunit G; Validated; Region: PRK09130 279238006645 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 279238006646 catalytic loop [active] 279238006647 iron binding site [ion binding]; other site 279238006648 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 279238006649 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 279238006650 molybdopterin cofactor binding site; other site 279238006651 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 279238006652 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 279238006653 SLBB domain; Region: SLBB; pfam10531 279238006654 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 279238006655 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 279238006656 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 279238006657 putative dimer interface [polypeptide binding]; other site 279238006658 [2Fe-2S] cluster binding site [ion binding]; other site 279238006659 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 279238006660 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 279238006661 NADH dehydrogenase subunit D; Validated; Region: PRK06075 279238006662 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 279238006663 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 279238006664 NADH dehydrogenase subunit B; Validated; Region: PRK06411 279238006665 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 279238006666 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 279238006667 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 279238006668 NAD(P) binding site [chemical binding]; other site 279238006669 catalytic residues [active] 279238006670 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 279238006671 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 279238006672 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 279238006673 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 279238006674 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 279238006675 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 279238006676 dimer interface [polypeptide binding]; other site 279238006677 active site 279238006678 Bacterial SH3 domain; Region: SH3_4; pfam06347 279238006679 Bacterial SH3 domain; Region: SH3_4; pfam06347 279238006680 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 279238006681 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 279238006682 dimerization interface [polypeptide binding]; other site 279238006683 ligand binding site [chemical binding]; other site 279238006684 NADP binding site [chemical binding]; other site 279238006685 catalytic site [active] 279238006686 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 279238006687 Flagellin N-methylase; Region: FliB; pfam03692 279238006688 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 279238006689 FMN binding site [chemical binding]; other site 279238006690 substrate binding site [chemical binding]; other site 279238006691 putative catalytic residue [active] 279238006692 Methyltransferase domain; Region: Methyltransf_31; pfam13847 279238006693 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 279238006694 S-adenosylmethionine binding site [chemical binding]; other site 279238006695 peptide chain release factor 2; Validated; Region: prfB; PRK00578 279238006696 This domain is found in peptide chain release factors; Region: PCRF; smart00937 279238006697 RF-1 domain; Region: RF-1; pfam00472 279238006698 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 279238006699 catalytic triad [active] 279238006700 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 279238006701 Transglycosylase; Region: Transgly; pfam00912 279238006702 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 279238006703 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 279238006704 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 279238006705 active site 279238006706 metal binding site [ion binding]; metal-binding site 279238006707 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 279238006708 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 279238006709 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 279238006710 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 279238006711 S-adenosylmethionine binding site [chemical binding]; other site 279238006712 Trehalose utilisation; Region: ThuA; pfam06283 279238006713 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 279238006714 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 279238006715 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 279238006716 CoenzymeA binding site [chemical binding]; other site 279238006717 subunit interaction site [polypeptide binding]; other site 279238006718 PHB binding site; other site 279238006719 Predicted ATPase [General function prediction only]; Region: COG1485 279238006720 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 279238006721 CHASE2 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are parts of signal transduction pathways in bacteria; Region: CHASE2; smart01080 279238006722 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 279238006723 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 279238006724 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 279238006725 active site 279238006726 dimer interface [polypeptide binding]; other site 279238006727 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 279238006728 Ligand Binding Site [chemical binding]; other site 279238006729 Molecular Tunnel; other site 279238006730 exosortase A; Region: exosortase_1; TIGR03109 279238006731 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 279238006732 EpsI family protein; Region: EpsI_fam; TIGR02914 279238006733 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 279238006734 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 279238006735 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 279238006736 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 279238006737 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 279238006738 putative active site [active] 279238006739 putative catalytic site [active] 279238006740 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 279238006741 AAA ATPase domain; Region: AAA_16; pfam13191 279238006742 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 279238006743 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 279238006744 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 279238006745 Chain length determinant protein; Region: Wzz; cl15801 279238006746 Homeobox associated leucine zipper; Region: HALZ; cl02577 279238006747 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 279238006748 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 279238006749 SLBB domain; Region: SLBB; pfam10531 279238006750 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 279238006751 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 279238006752 dimer interface [polypeptide binding]; other site 279238006753 active site 279238006754 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 279238006755 catalytic residues [active] 279238006756 substrate binding site [chemical binding]; other site 279238006757 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 279238006758 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 279238006759 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 279238006760 acyl-activating enzyme (AAE) consensus motif; other site 279238006761 acyl-activating enzyme (AAE) consensus motif; other site 279238006762 AMP binding site [chemical binding]; other site 279238006763 active site 279238006764 CoA binding site [chemical binding]; other site 279238006765 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 279238006766 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 279238006767 exosortase A system-associated hydrolase 2; Region: hydr2_PEP; TIGR03101 279238006768 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 279238006769 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 279238006770 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 279238006771 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 279238006772 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 279238006773 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 279238006774 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 279238006775 response regulator; Provisional; Region: PRK13435 279238006776 hypothetical protein; Provisional; Region: PRK13559 279238006777 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 279238006778 putative active site [active] 279238006779 heme pocket [chemical binding]; other site 279238006780 HWE histidine kinase; Region: HWE_HK; smart00911 279238006781 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 279238006782 CoenzymeA binding site [chemical binding]; other site 279238006783 subunit interaction site [polypeptide binding]; other site 279238006784 PHB binding site; other site 279238006785 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 279238006786 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 279238006787 metal binding site [ion binding]; metal-binding site 279238006788 dimer interface [polypeptide binding]; other site 279238006789 acetyl-CoA acetyltransferase; Provisional; Region: PRK06025 279238006790 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 279238006791 dimer interface [polypeptide binding]; other site 279238006792 active site 279238006793 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 279238006794 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 279238006795 PA/protease or protease-like domain interface [polypeptide binding]; other site 279238006796 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 279238006797 Peptidase family M28; Region: Peptidase_M28; pfam04389 279238006798 metal binding site [ion binding]; metal-binding site 279238006799 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 279238006800 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 279238006801 Walker A/P-loop; other site 279238006802 ATP binding site [chemical binding]; other site 279238006803 Q-loop/lid; other site 279238006804 ABC transporter signature motif; other site 279238006805 Walker B; other site 279238006806 D-loop; other site 279238006807 H-loop/switch region; other site 279238006808 ABC transporter; Region: ABC_tran_2; pfam12848 279238006809 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 279238006810 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 279238006811 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 279238006812 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 279238006813 Predicted membrane protein [Function unknown]; Region: COG3766 279238006814 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 279238006815 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 279238006816 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 279238006817 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 279238006818 active site 279238006819 nucleotide binding site [chemical binding]; other site 279238006820 HIGH motif; other site 279238006821 KMSKS motif; other site 279238006822 flagellin; Provisional; Region: PRK12802 279238006823 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 279238006824 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 279238006825 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 279238006826 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 279238006827 catalytic core [active] 279238006828 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 279238006829 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 279238006830 DNA binding residues [nucleotide binding] 279238006831 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 279238006832 IHF dimer interface [polypeptide binding]; other site 279238006833 IHF - DNA interface [nucleotide binding]; other site 279238006834 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 279238006835 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 279238006836 dimer interface [polypeptide binding]; other site 279238006837 active site 279238006838 CoA binding pocket [chemical binding]; other site 279238006839 putative phosphate acyltransferase; Provisional; Region: PRK05331 279238006840 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 279238006841 MAPEG family; Region: MAPEG; pfam01124 279238006842 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 279238006843 Predicted transcriptional regulator [Transcription]; Region: COG2932 279238006844 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 279238006845 Catalytic site [active] 279238006846 LVIVD repeat; Region: LVIVD; pfam08309 279238006847 Domain of unknown function (DUF336); Region: DUF336; cl01249 279238006848 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 279238006849 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 279238006850 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 279238006851 NAD(P) binding site [chemical binding]; other site 279238006852 catalytic residues [active] 279238006853 acetolactate synthase; Reviewed; Region: PRK08322 279238006854 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 279238006855 PYR/PP interface [polypeptide binding]; other site 279238006856 dimer interface [polypeptide binding]; other site 279238006857 TPP binding site [chemical binding]; other site 279238006858 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 279238006859 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 279238006860 TPP-binding site [chemical binding]; other site 279238006861 dimer interface [polypeptide binding]; other site 279238006862 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 279238006863 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 279238006864 NAD binding site [chemical binding]; other site 279238006865 ligand binding site [chemical binding]; other site 279238006866 catalytic site [active] 279238006867 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 279238006868 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 279238006869 active site 279238006870 HIGH motif; other site 279238006871 nucleotide binding site [chemical binding]; other site 279238006872 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 279238006873 active site 279238006874 KMSKS motif; other site 279238006875 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 279238006876 tRNA binding surface [nucleotide binding]; other site 279238006877 anticodon binding site; other site 279238006878 haemagglutination activity domain; Region: Haemagg_act; smart00912 279238006879 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 279238006880 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 279238006881 CHASE2 domain; Region: CHASE2; pfam05226 279238006882 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 279238006883 cyclase homology domain; Region: CHD; cd07302 279238006884 nucleotidyl binding site; other site 279238006885 metal binding site [ion binding]; metal-binding site 279238006886 dimer interface [polypeptide binding]; other site 279238006887 CHAT domain; Region: CHAT; pfam12770 279238006888 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 279238006889 putative FMN binding site [chemical binding]; other site 279238006890 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 279238006891 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 279238006892 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 279238006893 metal ion-dependent adhesion site (MIDAS); other site 279238006894 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 279238006895 active site 279238006896 intersubunit interactions; other site 279238006897 catalytic residue [active] 279238006898 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 279238006899 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 279238006900 primosome assembly protein PriA; Validated; Region: PRK05580 279238006901 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 279238006902 ATP binding site [chemical binding]; other site 279238006903 putative Mg++ binding site [ion binding]; other site 279238006904 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 279238006905 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 279238006906 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 279238006907 CAAX protease self-immunity; Region: Abi; pfam02517 279238006908 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 279238006909 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 279238006910 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279238006911 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279238006912 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 279238006913 DNA binding site [nucleotide binding] 279238006914 active site 279238006915 Protein of unknown function (DUF1203); Region: DUF1203; pfam06718 279238006916 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 279238006917 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 279238006918 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 279238006919 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 279238006920 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 279238006921 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 279238006922 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 279238006923 beta subunit interaction interface [polypeptide binding]; other site 279238006924 Walker A motif; other site 279238006925 ATP binding site [chemical binding]; other site 279238006926 Walker B motif; other site 279238006927 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 279238006928 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 279238006929 core domain interface [polypeptide binding]; other site 279238006930 delta subunit interface [polypeptide binding]; other site 279238006931 epsilon subunit interface [polypeptide binding]; other site 279238006932 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 279238006933 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 279238006934 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 279238006935 alpha subunit interaction interface [polypeptide binding]; other site 279238006936 Walker A motif; other site 279238006937 ATP binding site [chemical binding]; other site 279238006938 Walker B motif; other site 279238006939 inhibitor binding site; inhibition site 279238006940 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 279238006941 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 279238006942 gamma subunit interface [polypeptide binding]; other site 279238006943 epsilon subunit interface [polypeptide binding]; other site 279238006944 LBP interface [polypeptide binding]; other site 279238006945 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 279238006946 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 279238006947 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 279238006948 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 279238006949 C-terminal, alpha helical domain of Beta etherase LigE; Region: GST_C_etherase_LigE; cd03202 279238006950 putative N-terminal domain interface [polypeptide binding]; other site 279238006951 putative dimer interface [polypeptide binding]; other site 279238006952 putative substrate binding pocket (H-site) [chemical binding]; other site 279238006953 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 279238006954 active site 279238006955 Transcriptional regulator [Transcription]; Region: IclR; COG1414 279238006956 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 279238006957 Bacterial transcriptional regulator; Region: IclR; pfam01614 279238006958 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; cd00531 279238006959 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 279238006960 substrate binding site [chemical binding]; other site 279238006961 THF binding site; other site 279238006962 zinc-binding site [ion binding]; other site 279238006963 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 279238006964 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 279238006965 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 279238006966 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 279238006967 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 279238006968 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; cl00164 279238006969 active site turn [active] 279238006970 phosphorylation site [posttranslational modification] 279238006971 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 279238006972 HPr interaction site; other site 279238006973 glycerol kinase (GK) interaction site [polypeptide binding]; other site 279238006974 active site 279238006975 phosphorylation site [posttranslational modification] 279238006976 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 279238006977 dimerization domain swap beta strand [polypeptide binding]; other site 279238006978 regulatory protein interface [polypeptide binding]; other site 279238006979 active site 279238006980 regulatory phosphorylation site [posttranslational modification]; other site 279238006981 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 279238006982 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 279238006983 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 279238006984 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 279238006985 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 279238006986 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 279238006987 active site 279238006988 dimer interface [polypeptide binding]; other site 279238006989 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 279238006990 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 279238006991 dimer interface [polypeptide binding]; other site 279238006992 active site 279238006993 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 279238006994 dimer interface [polypeptide binding]; other site 279238006995 active site 279238006996 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 279238006997 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 279238006998 DNA-binding site [nucleotide binding]; DNA binding site 279238006999 UTRA domain; Region: UTRA; pfam07702 279238007000 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 279238007001 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 279238007002 active site 279238007003 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 279238007004 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 279238007005 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 279238007006 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 279238007007 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 279238007008 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 279238007009 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 279238007010 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 279238007011 Uncharacterized conserved protein [Function unknown]; Region: COG3538 279238007012 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 279238007013 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 279238007014 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 279238007015 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 279238007016 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 279238007017 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 279238007018 sugar binding site [chemical binding]; other site 279238007019 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 279238007020 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 279238007021 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 279238007022 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 279238007023 CutC family; Region: CutC; cl01218 279238007024 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 279238007025 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 279238007026 Domain of unknown function (DUF718); Region: DUF718; cl01281 279238007027 L-fucose transporter; Provisional; Region: PRK10133; cl17665 279238007028 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 279238007029 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06550 279238007030 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 279238007031 NAD binding site [chemical binding]; other site 279238007032 homotetramer interface [polypeptide binding]; other site 279238007033 homodimer interface [polypeptide binding]; other site 279238007034 active site 279238007035 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 279238007036 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 279238007037 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 279238007038 Amidohydrolase; Region: Amidohydro_2; pfam04909 279238007039 active site 279238007040 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 279238007041 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 279238007042 active site 279238007043 catalytic tetrad [active] 279238007044 Transcriptional regulator [Transcription]; Region: IclR; COG1414 279238007045 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 279238007046 Bacterial transcriptional regulator; Region: IclR; pfam01614 279238007047 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 279238007048 Cupin domain; Region: Cupin_2; cl17218 279238007049 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279238007050 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 279238007051 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 279238007052 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 279238007053 active site 279238007054 phosphorylation site [posttranslational modification] 279238007055 intermolecular recognition site; other site 279238007056 dimerization interface [polypeptide binding]; other site 279238007057 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 279238007058 DNA binding site [nucleotide binding] 279238007059 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 279238007060 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 279238007061 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 279238007062 TPR motif; other site 279238007063 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 279238007064 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 279238007065 N- and C-terminal domain interface [polypeptide binding]; other site 279238007066 active site 279238007067 MgATP binding site [chemical binding]; other site 279238007068 catalytic site [active] 279238007069 metal binding site [ion binding]; metal-binding site 279238007070 glycerol binding site [chemical binding]; other site 279238007071 homotetramer interface [polypeptide binding]; other site 279238007072 homodimer interface [polypeptide binding]; other site 279238007073 FBP binding site [chemical binding]; other site 279238007074 protein IIAGlc interface [polypeptide binding]; other site 279238007075 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 279238007076 hydroxyglutarate oxidase; Provisional; Region: PRK11728 279238007077 hydroxyglutarate oxidase; Provisional; Region: PRK11728 279238007078 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 279238007079 active site 279238007080 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 279238007081 dimer interface [polypeptide binding]; other site 279238007082 non-prolyl cis peptide bond; other site 279238007083 insertion regions; other site 279238007084 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 279238007085 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 279238007086 active site 279238007087 catalytic tetrad [active] 279238007088 Transcriptional regulators [Transcription]; Region: PurR; COG1609 279238007089 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 279238007090 DNA binding site [nucleotide binding] 279238007091 domain linker motif; other site 279238007092 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 279238007093 putative ligand binding site [chemical binding]; other site 279238007094 putative dimerization interface [polypeptide binding]; other site 279238007095 alpha-glucosidase; Provisional; Region: PRK10426 279238007096 YihQ is a bacterial alpha-glucosidase with a conserved glycosyl hydrolase family 31 (GH31) domain that catalyzes the release of an alpha-glucosyl residue from the non-reducing end of alpha-glucoside substrates such as alpha-glucosyl fluoride. Orthologs...; Region: GH31_glucosidase_YihQ; cd06594 279238007097 putative active site [active] 279238007098 putative catalytic site [active] 279238007099 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238007100 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 279238007101 N-terminal plug; other site 279238007102 ligand-binding site [chemical binding]; other site 279238007103 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238007104 putative substrate translocation pore; other site 279238007105 Major Facilitator Superfamily; Region: MFS_1; pfam07690 279238007106 Predicted membrane protein [Function unknown]; Region: COG2855 279238007107 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 279238007108 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 279238007109 NAD(P) binding site [chemical binding]; other site 279238007110 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 279238007111 Cytochrome P450; Region: p450; cl12078 279238007112 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 279238007113 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 279238007114 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 279238007115 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 279238007116 acyl-activating enzyme (AAE) consensus motif; other site 279238007117 putative AMP binding site [chemical binding]; other site 279238007118 putative active site [active] 279238007119 putative CoA binding site [chemical binding]; other site 279238007120 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238007121 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238007122 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 279238007123 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 279238007124 active site 279238007125 dimer interface [polypeptide binding]; other site 279238007126 metal binding site [ion binding]; metal-binding site 279238007127 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 279238007128 CoA-transferase family III; Region: CoA_transf_3; pfam02515 279238007129 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 279238007130 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 279238007131 N-terminal plug; other site 279238007132 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 279238007133 ligand-binding site [chemical binding]; other site 279238007134 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 279238007135 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 279238007136 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 279238007137 active site 279238007138 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 279238007139 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 279238007140 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 279238007141 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 279238007142 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 279238007143 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 279238007144 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 279238007145 Zn binding site [ion binding]; other site 279238007146 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279238007147 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238007148 LysR substrate binding domain; Region: LysR_substrate; pfam03466 279238007149 dimerization interface [polypeptide binding]; other site 279238007150 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 279238007151 active site 279238007152 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 279238007153 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 279238007154 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238007155 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238007156 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 279238007157 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 279238007158 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 279238007159 Sulfatase; Region: Sulfatase; pfam00884 279238007160 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 279238007161 Uncharacterized conserved protein [Function unknown]; Region: COG5361 279238007162 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 279238007163 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 279238007164 Uncharacterized conserved protein [Function unknown]; Region: COG5361 279238007165 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 279238007166 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 279238007167 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279238007168 cyclohexanol reductases, including levodione reductase, classical (c) SDRs; Region: cyclohexanol_reductase_SDR_c; cd05330 279238007169 NAD binding site [chemical binding]; other site 279238007170 homotetramer interface [polypeptide binding]; other site 279238007171 homodimer interface [polypeptide binding]; other site 279238007172 active site 279238007173 substrate binding site [chemical binding]; other site 279238007174 Uncharacterized conserved protein [Function unknown]; Region: COG1262 279238007175 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 279238007176 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 279238007177 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 279238007178 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 279238007179 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279238007180 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238007181 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 279238007182 dimerization interface [polypeptide binding]; other site 279238007183 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 279238007184 ABC-2 type transporter; Region: ABC2_membrane; cl17235 279238007185 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 279238007186 GcrA cell cycle regulator; Region: GcrA; cl11564 279238007187 GcrA cell cycle regulator; Region: GcrA; cl11564 279238007188 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 279238007189 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 279238007190 metal binding site [ion binding]; metal-binding site 279238007191 active site 279238007192 I-site; other site 279238007193 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 279238007194 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 279238007195 RNase E interface [polypeptide binding]; other site 279238007196 trimer interface [polypeptide binding]; other site 279238007197 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 279238007198 RNase E interface [polypeptide binding]; other site 279238007199 trimer interface [polypeptide binding]; other site 279238007200 active site 279238007201 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 279238007202 putative nucleic acid binding region [nucleotide binding]; other site 279238007203 G-X-X-G motif; other site 279238007204 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 279238007205 RNA binding site [nucleotide binding]; other site 279238007206 domain interface; other site 279238007207 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 279238007208 16S/18S rRNA binding site [nucleotide binding]; other site 279238007209 S13e-L30e interaction site [polypeptide binding]; other site 279238007210 25S rRNA binding site [nucleotide binding]; other site 279238007211 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 279238007212 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 279238007213 RNA binding site [nucleotide binding]; other site 279238007214 active site 279238007215 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 279238007216 Peptidase family M50; Region: Peptidase_M50; pfam02163 279238007217 active site 279238007218 putative substrate binding region [chemical binding]; other site 279238007219 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 279238007220 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279238007221 Coenzyme A binding pocket [chemical binding]; other site 279238007222 thymidine kinase; Provisional; Region: PRK04296 279238007223 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 279238007224 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 279238007225 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 279238007226 translation initiation factor IF-2; Region: IF-2; TIGR00487 279238007227 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 279238007228 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 279238007229 G1 box; other site 279238007230 putative GEF interaction site [polypeptide binding]; other site 279238007231 GTP/Mg2+ binding site [chemical binding]; other site 279238007232 Switch I region; other site 279238007233 G2 box; other site 279238007234 G3 box; other site 279238007235 Switch II region; other site 279238007236 G4 box; other site 279238007237 G5 box; other site 279238007238 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 279238007239 Translation-initiation factor 2; Region: IF-2; pfam11987 279238007240 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 279238007241 hypothetical protein; Provisional; Region: PRK09190 279238007242 Protein of unknown function (DUF448); Region: DUF448; pfam04296 279238007243 putative RNA binding cleft [nucleotide binding]; other site 279238007244 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 279238007245 NusA N-terminal domain; Region: NusA_N; pfam08529 279238007246 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 279238007247 RNA binding site [nucleotide binding]; other site 279238007248 homodimer interface [polypeptide binding]; other site 279238007249 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 279238007250 G-X-X-G motif; other site 279238007251 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 279238007252 G-X-X-G motif; other site 279238007253 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 279238007254 hypothetical protein; Provisional; Region: PRK14636 279238007255 Sm and related proteins; Region: Sm_like; cl00259 279238007256 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 279238007257 putative oligomer interface [polypeptide binding]; other site 279238007258 putative RNA binding site [nucleotide binding]; other site 279238007259 PspC domain; Region: PspC; pfam04024 279238007260 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 279238007261 TadE-like protein; Region: TadE; pfam07811 279238007262 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 279238007263 TadE-like protein; Region: TadE; pfam07811 279238007264 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 279238007265 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 279238007266 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 279238007267 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 279238007268 CoA-transferase family III; Region: CoA_transf_3; pfam02515 279238007269 acetyl-CoA acetyltransferase; Validated; Region: PRK08257 279238007270 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 279238007271 active site 279238007272 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 279238007273 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 279238007274 NAD(P) binding site [chemical binding]; other site 279238007275 catalytic residues [active] 279238007276 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 279238007277 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 279238007278 catalytic Zn binding site [ion binding]; other site 279238007279 NAD binding site [chemical binding]; other site 279238007280 structural Zn binding site [ion binding]; other site 279238007281 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279238007282 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238007283 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 279238007284 dimerization interface [polypeptide binding]; other site 279238007285 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 279238007286 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 279238007287 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238007288 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 279238007289 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 279238007290 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238007291 NAD(P) binding site [chemical binding]; other site 279238007292 active site 279238007293 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 279238007294 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 279238007295 active site 279238007296 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 2; Region: FDH_like_2; cd08284 279238007297 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 279238007298 catalytic Zn binding site [ion binding]; other site 279238007299 NAD(P) binding site [chemical binding]; other site 279238007300 structural Zn binding site [ion binding]; other site 279238007301 aspartate aminotransferase; Provisional; Region: PRK05764 279238007302 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 279238007303 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279238007304 homodimer interface [polypeptide binding]; other site 279238007305 catalytic residue [active] 279238007306 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 279238007307 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 279238007308 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 279238007309 Metallo-dependent hydrolases, subgroup A 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_A; cd01299 279238007310 active site 279238007311 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 279238007312 nudix motif; other site 279238007313 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 279238007314 putative GSH binding site [chemical binding]; other site 279238007315 catalytic residues [active] 279238007316 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 279238007317 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 279238007318 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 279238007319 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 279238007320 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 279238007321 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 279238007322 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 279238007323 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 279238007324 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 279238007325 alphaNTD - beta interaction site [polypeptide binding]; other site 279238007326 alphaNTD homodimer interface [polypeptide binding]; other site 279238007327 alphaNTD - beta' interaction site [polypeptide binding]; other site 279238007328 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 279238007329 30S ribosomal protein S11; Validated; Region: PRK05309 279238007330 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 279238007331 30S ribosomal protein S13; Region: bact_S13; TIGR03631 279238007332 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 279238007333 putative trimer interface [polypeptide binding]; other site 279238007334 putative CoA binding site [chemical binding]; other site 279238007335 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 279238007336 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 279238007337 trimer interface [polypeptide binding]; other site 279238007338 active site 279238007339 substrate binding site [chemical binding]; other site 279238007340 CoA binding site [chemical binding]; other site 279238007341 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 279238007342 HD domain; Region: HD_4; pfam13328 279238007343 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 279238007344 synthetase active site [active] 279238007345 NTP binding site [chemical binding]; other site 279238007346 metal binding site [ion binding]; metal-binding site 279238007347 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 279238007348 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 279238007349 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279238007350 Coenzyme A binding pocket [chemical binding]; other site 279238007351 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 279238007352 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 279238007353 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 279238007354 putative active site [active] 279238007355 putative metal binding site [ion binding]; other site 279238007356 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 279238007357 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 279238007358 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 279238007359 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 279238007360 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 279238007361 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 279238007362 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 279238007363 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 279238007364 G1 box; other site 279238007365 putative GEF interaction site [polypeptide binding]; other site 279238007366 GTP/Mg2+ binding site [chemical binding]; other site 279238007367 Switch I region; other site 279238007368 G2 box; other site 279238007369 G3 box; other site 279238007370 Switch II region; other site 279238007371 G4 box; other site 279238007372 G5 box; other site 279238007373 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 279238007374 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 279238007375 Hemerythrin-like domain; Region: Hr-like; cd12108 279238007376 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 279238007377 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_2; cd03814 279238007378 Predicted transcriptional regulators [Transcription]; Region: COG1695 279238007379 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 279238007380 recombination factor protein RarA; Reviewed; Region: PRK13342 279238007381 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 279238007382 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 279238007383 Walker A motif; other site 279238007384 ATP binding site [chemical binding]; other site 279238007385 Walker B motif; other site 279238007386 arginine finger; other site 279238007387 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 279238007388 MarR family; Region: MarR_2; cl17246 279238007389 MarR family; Region: MarR_2; cl17246 279238007390 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 279238007391 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 279238007392 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 279238007393 active site residue [active] 279238007394 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 279238007395 active site residue [active] 279238007396 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 279238007397 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; cl00321 279238007398 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 279238007399 catalytic residue [active] 279238007400 Mechanosensitive ion channel; Region: MS_channel; pfam00924 279238007401 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 279238007402 active site 279238007403 SAM binding site [chemical binding]; other site 279238007404 homodimer interface [polypeptide binding]; other site 279238007405 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 279238007406 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 279238007407 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 279238007408 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 279238007409 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 279238007410 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 279238007411 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 279238007412 Active Sites [active] 279238007413 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 279238007414 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 279238007415 transmembrane helices; other site 279238007416 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 279238007417 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 279238007418 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 279238007419 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 279238007420 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 279238007421 Ion channel; Region: Ion_trans_2; pfam07885 279238007422 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 279238007423 TrkA-N domain; Region: TrkA_N; pfam02254 279238007424 TrkA-C domain; Region: TrkA_C; pfam02080 279238007425 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 279238007426 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 279238007427 active site 279238007428 intersubunit interface [polypeptide binding]; other site 279238007429 catalytic residue [active] 279238007430 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 279238007431 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 279238007432 FeS/SAM binding site; other site 279238007433 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 279238007434 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 279238007435 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 279238007436 metal-binding site [ion binding] 279238007437 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 279238007438 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 279238007439 FixH; Region: FixH; pfam05751 279238007440 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 279238007441 4Fe-4S binding domain; Region: Fer4_5; pfam12801 279238007442 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 279238007443 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 279238007444 Protein of unknown function (DUF615); Region: DUF615; cl01147 279238007445 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 279238007446 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 279238007447 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 279238007448 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 279238007449 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 279238007450 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 279238007451 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 279238007452 Low-spin heme binding site [chemical binding]; other site 279238007453 Putative water exit pathway; other site 279238007454 Binuclear center (active site) [active] 279238007455 Putative proton exit pathway; other site 279238007456 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 279238007457 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238007458 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 279238007459 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 279238007460 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 279238007461 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 279238007462 ligand binding site [chemical binding]; other site 279238007463 flexible hinge region; other site 279238007464 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 279238007465 putative switch regulator; other site 279238007466 non-specific DNA interactions [nucleotide binding]; other site 279238007467 DNA binding site [nucleotide binding] 279238007468 sequence specific DNA binding site [nucleotide binding]; other site 279238007469 putative cAMP binding site [chemical binding]; other site 279238007470 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 279238007471 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 279238007472 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 279238007473 ATP binding site [chemical binding]; other site 279238007474 putative Mg++ binding site [ion binding]; other site 279238007475 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 279238007476 nucleotide binding region [chemical binding]; other site 279238007477 ATP-binding site [chemical binding]; other site 279238007478 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 279238007479 RNA binding site [nucleotide binding]; other site 279238007480 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 279238007481 rRNA binding site [nucleotide binding]; other site 279238007482 predicted 30S ribosome binding site; other site 279238007483 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 279238007484 DNA-binding site [nucleotide binding]; DNA binding site 279238007485 RNA-binding motif; other site 279238007486 GTP-binding protein LepA; Provisional; Region: PRK05433 279238007487 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 279238007488 G1 box; other site 279238007489 putative GEF interaction site [polypeptide binding]; other site 279238007490 GTP/Mg2+ binding site [chemical binding]; other site 279238007491 Switch I region; other site 279238007492 G2 box; other site 279238007493 G3 box; other site 279238007494 Switch II region; other site 279238007495 G4 box; other site 279238007496 G5 box; other site 279238007497 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 279238007498 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 279238007499 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 279238007500 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 279238007501 Peptidase S46; Region: Peptidase_S46; pfam10459 279238007502 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 279238007503 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 279238007504 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 279238007505 S-adenosylmethionine binding site [chemical binding]; other site 279238007506 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 279238007507 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 279238007508 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 279238007509 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 279238007510 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 279238007511 active site 279238007512 DNA binding site [nucleotide binding] 279238007513 Int/Topo IB signature motif; other site 279238007514 catalytic residues [active] 279238007515 putative S-transferase; Provisional; Region: PRK11752 279238007516 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 279238007517 C-terminal domain interface [polypeptide binding]; other site 279238007518 GSH binding site (G-site) [chemical binding]; other site 279238007519 dimer interface [polypeptide binding]; other site 279238007520 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 279238007521 dimer interface [polypeptide binding]; other site 279238007522 N-terminal domain interface [polypeptide binding]; other site 279238007523 active site 279238007524 Acetoacetate decarboxylase (ADC); Region: ADC; pfam06314 279238007525 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 279238007526 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 279238007527 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 279238007528 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 279238007529 NAD binding site [chemical binding]; other site 279238007530 catalytic residues [active] 279238007531 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 279238007532 Helix-turn-helix domain; Region: HTH_18; pfam12833 279238007533 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279238007534 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238007535 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 279238007536 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 279238007537 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 279238007538 inhibitor-cofactor binding pocket; inhibition site 279238007539 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279238007540 catalytic residue [active] 279238007541 succinic semialdehyde dehydrogenase; Region: PLN02278 279238007542 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 279238007543 tetramerization interface [polypeptide binding]; other site 279238007544 NAD(P) binding site [chemical binding]; other site 279238007545 catalytic residues [active] 279238007546 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 279238007547 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 279238007548 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279238007549 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 279238007550 catalytic triad [active] 279238007551 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 279238007552 putative active site [active] 279238007553 putative metal binding site [ion binding]; other site 279238007554 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 279238007555 Cytochrome P450; Region: p450; cl12078 279238007556 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 279238007557 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 279238007558 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 279238007559 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 279238007560 NAD binding site [chemical binding]; other site 279238007561 catalytic residues [active] 279238007562 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 279238007563 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279238007564 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238007565 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 279238007566 N-terminal plug; other site 279238007567 ligand-binding site [chemical binding]; other site 279238007568 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 279238007569 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 279238007570 apolar tunnel; other site 279238007571 heme binding site [chemical binding]; other site 279238007572 dimerization interface [polypeptide binding]; other site 279238007573 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 279238007574 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 279238007575 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 279238007576 Sulfate transporter family; Region: Sulfate_transp; pfam00916 279238007577 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 279238007578 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 279238007579 active site clefts [active] 279238007580 zinc binding site [ion binding]; other site 279238007581 dimer interface [polypeptide binding]; other site 279238007582 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 279238007583 dimerization interface [polypeptide binding]; other site 279238007584 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 279238007585 ATP binding site [chemical binding]; other site 279238007586 Mg2+ binding site [ion binding]; other site 279238007587 G-X-G motif; other site 279238007588 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 279238007589 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 279238007590 active site 279238007591 phosphorylation site [posttranslational modification] 279238007592 intermolecular recognition site; other site 279238007593 dimerization interface [polypeptide binding]; other site 279238007594 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 279238007595 DNA binding site [nucleotide binding] 279238007596 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 279238007597 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 279238007598 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 279238007599 acyl-activating enzyme (AAE) consensus motif; other site 279238007600 AMP binding site [chemical binding]; other site 279238007601 active site 279238007602 CoA binding site [chemical binding]; other site 279238007603 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238007604 putative substrate translocation pore; other site 279238007605 Porin subfamily; Region: Porin_2; pfam02530 279238007606 acetyl-CoA synthetase; Provisional; Region: PRK00174 279238007607 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 279238007608 active site 279238007609 CoA binding site [chemical binding]; other site 279238007610 acyl-activating enzyme (AAE) consensus motif; other site 279238007611 AMP binding site [chemical binding]; other site 279238007612 acetate binding site [chemical binding]; other site 279238007613 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 279238007614 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 279238007615 active site 279238007616 phosphorylation site [posttranslational modification] 279238007617 intermolecular recognition site; other site 279238007618 dimerization interface [polypeptide binding]; other site 279238007619 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 279238007620 DNA binding residues [nucleotide binding] 279238007621 dimerization interface [polypeptide binding]; other site 279238007622 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 279238007623 PAS domain; Region: PAS; smart00091 279238007624 PAS fold; Region: PAS_7; pfam12860 279238007625 GDP/GTP exchange factor Sec2p; Region: Sec2p; pfam06428 279238007626 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 279238007627 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 279238007628 dimer interface [polypeptide binding]; other site 279238007629 phosphorylation site [posttranslational modification] 279238007630 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 279238007631 ATP binding site [chemical binding]; other site 279238007632 Mg2+ binding site [ion binding]; other site 279238007633 G-X-G motif; other site 279238007634 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 279238007635 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 279238007636 active site 279238007637 phosphorylation site [posttranslational modification] 279238007638 intermolecular recognition site; other site 279238007639 dimerization interface [polypeptide binding]; other site 279238007640 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 279238007641 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 279238007642 active site 279238007643 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 279238007644 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 279238007645 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 279238007646 catalytic motif [active] 279238007647 Catalytic residue [active] 279238007648 Aspartyl protease; Region: Asp_protease_2; pfam13650 279238007649 inhibitor binding site; inhibition site 279238007650 catalytic motif [active] 279238007651 Catalytic residue [active] 279238007652 Active site flap [active] 279238007653 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 279238007654 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 279238007655 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 279238007656 Walker A/P-loop; other site 279238007657 ATP binding site [chemical binding]; other site 279238007658 Q-loop/lid; other site 279238007659 ABC transporter signature motif; other site 279238007660 Walker B; other site 279238007661 D-loop; other site 279238007662 H-loop/switch region; other site 279238007663 Domain of unknown function (DUF1737); Region: DUF1737; pfam08410 279238007664 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 279238007665 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 279238007666 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 279238007667 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 279238007668 Walker A motif; other site 279238007669 ATP binding site [chemical binding]; other site 279238007670 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 279238007671 Walker B motif; other site 279238007672 arginine finger; other site 279238007673 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 279238007674 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 279238007675 active site 279238007676 HslU subunit interaction site [polypeptide binding]; other site 279238007677 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 279238007678 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 279238007679 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; cl12045 279238007680 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 279238007681 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 279238007682 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 279238007683 Domain of unknown function DUF87; Region: DUF87; pfam01935 279238007684 AAA-like domain; Region: AAA_10; pfam12846 279238007685 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; pfam09608 279238007686 bacteriophage N4 adsorption protein B; Provisional; Region: PRK14716 279238007687 active site 279238007688 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 279238007689 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 279238007690 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 279238007691 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 279238007692 dimerization interface [polypeptide binding]; other site 279238007693 DPS ferroxidase diiron center [ion binding]; other site 279238007694 ion pore; other site 279238007695 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 279238007696 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 279238007697 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 279238007698 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 279238007699 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 279238007700 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 279238007701 type II secretion system protein F; Region: GspF; TIGR02120 279238007702 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 279238007703 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 279238007704 type II secretion system protein E; Region: type_II_gspE; TIGR02533 279238007705 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 279238007706 Walker A motif; other site 279238007707 ATP binding site [chemical binding]; other site 279238007708 Walker B motif; other site 279238007709 type II secretion system protein D; Region: type_II_gspD; TIGR02517 279238007710 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 279238007711 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 279238007712 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 279238007713 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 279238007714 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 279238007715 protein binding site [polypeptide binding]; other site 279238007716 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_21; cd04680 279238007717 nudix motif; other site 279238007718 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 279238007719 active site 279238007720 DNA polymerase IV; Validated; Region: PRK02406 279238007721 DNA binding site [nucleotide binding] 279238007722 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238007723 putative substrate translocation pore; other site 279238007724 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]; Region: COG5001 279238007725 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 279238007726 metal binding site [ion binding]; metal-binding site 279238007727 active site 279238007728 I-site; other site 279238007729 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 279238007730 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 279238007731 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238007732 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 279238007733 dimerization interface [polypeptide binding]; other site 279238007734 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 279238007735 Recombination protein O N terminal; Region: RecO_N; pfam11967 279238007736 Recombination protein O C terminal; Region: RecO_C; pfam02565 279238007737 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 279238007738 tartrate dehydrogenase; Region: TTC; TIGR02089 279238007739 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 279238007740 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 279238007741 Ligand binding site; other site 279238007742 Putative Catalytic site; other site 279238007743 DXD motif; other site 279238007744 GtrA-like protein; Region: GtrA; pfam04138 279238007745 Predicted membrane protein [Function unknown]; Region: COG2246 279238007746 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 279238007747 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 279238007748 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 279238007749 homodimer interface [polypeptide binding]; other site 279238007750 substrate-cofactor binding pocket; other site 279238007751 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279238007752 catalytic residue [active] 279238007753 PAS domain S-box; Region: sensory_box; TIGR00229 279238007754 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 279238007755 putative active site [active] 279238007756 heme pocket [chemical binding]; other site 279238007757 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 279238007758 PAS domain; Region: PAS_9; pfam13426 279238007759 putative active site [active] 279238007760 heme pocket [chemical binding]; other site 279238007761 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 279238007762 HWE histidine kinase; Region: HWE_HK; smart00911 279238007763 Membrane fusogenic activity; Region: BMFP; pfam04380 279238007764 TspO/MBR family; Region: TspO_MBR; pfam03073 279238007765 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 279238007766 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 279238007767 RNA binding surface [nucleotide binding]; other site 279238007768 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 279238007769 Herpesvirus transcriptional regulator family; Region: Herpes_UL69; pfam05459 279238007770 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 279238007771 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 279238007772 homodimer interface [polypeptide binding]; other site 279238007773 substrate-cofactor binding pocket; other site 279238007774 catalytic residue [active] 279238007775 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 279238007776 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 279238007777 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238007778 NAD(P) binding site [chemical binding]; other site 279238007779 active site 279238007780 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 279238007781 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 279238007782 Putative NAD(P)-binding; Region: NAD_binding_7; cl17660 279238007783 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 279238007784 diaminopimelate decarboxylase; Region: lysA; TIGR01048 279238007785 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 279238007786 active site 279238007787 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 279238007788 substrate binding site [chemical binding]; other site 279238007789 catalytic residues [active] 279238007790 dimer interface [polypeptide binding]; other site 279238007791 argininosuccinate lyase; Provisional; Region: PRK00855 279238007792 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 279238007793 active sites [active] 279238007794 tetramer interface [polypeptide binding]; other site 279238007795 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 279238007796 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 279238007797 catalytic residues [active] 279238007798 phosphoserine aminotransferase; Provisional; Region: PRK03080 279238007799 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 279238007800 catalytic residue [active] 279238007801 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 279238007802 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 279238007803 ligand binding site [chemical binding]; other site 279238007804 NAD binding site [chemical binding]; other site 279238007805 dimerization interface [polypeptide binding]; other site 279238007806 catalytic site [active] 279238007807 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 279238007808 putative L-serine binding site [chemical binding]; other site 279238007809 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 279238007810 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 279238007811 motif 1; other site 279238007812 dimer interface [polypeptide binding]; other site 279238007813 motif 2; other site 279238007814 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 279238007815 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 279238007816 substrate binding pocket [chemical binding]; other site 279238007817 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 279238007818 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 279238007819 GDP-binding site [chemical binding]; other site 279238007820 ACT binding site; other site 279238007821 IMP binding site; other site 279238007822 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 279238007823 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 279238007824 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 279238007825 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 279238007826 heme-binding site [chemical binding]; other site 279238007827 Cupin domain; Region: Cupin_2; cl17218 279238007828 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 279238007829 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 279238007830 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 279238007831 Cu(I) binding site [ion binding]; other site 279238007832 Uncharacterized conserved protein [Function unknown]; Region: COG5316 279238007833 Uncharacterized conserved protein [Function unknown]; Region: COG5316 279238007834 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 279238007835 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 279238007836 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 279238007837 TrkA-N domain; Region: TrkA_N; pfam02254 279238007838 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 279238007839 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 279238007840 DNA binding site [nucleotide binding] 279238007841 active site 279238007842 Int/Topo IB signature motif; other site 279238007843 catalytic residues [active] 279238007844 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 279238007845 RecT family; Region: RecT; cl04285 279238007846 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 279238007847 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 279238007848 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 279238007849 Predicted transcriptional regulator [Transcription]; Region: COG2932 279238007850 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 279238007851 Catalytic site [active] 279238007852 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 279238007853 DnaA box-binding interface [nucleotide binding]; other site 279238007854 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 279238007855 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 279238007856 active site 279238007857 metal binding site [ion binding]; metal-binding site 279238007858 interdomain interaction site; other site 279238007859 AAA domain; Region: AAA_25; pfam13481 279238007860 Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent; Region: repA; cd01125 279238007861 Walker A motif; other site 279238007862 NTP binding site [chemical binding]; other site 279238007863 hexamer interface [polypeptide binding]; other site 279238007864 Walker B motif; other site 279238007865 Terminase small subunit; Region: Terminase_2; pfam03592 279238007866 Uncharacterized conserved protein [Function unknown]; Region: COG5323 279238007867 Terminase-like family; Region: Terminase_6; pfam03237 279238007868 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 279238007869 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 279238007870 hypothetical protein; Provisional; Region: 57B; PHA02574 279238007871 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 279238007872 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 279238007873 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4834 279238007874 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 279238007875 Protein of unknown function (DUF4054); Region: DUF4054; pfam13262 279238007876 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 279238007877 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 279238007878 non-specific DNA binding site [nucleotide binding]; other site 279238007879 salt bridge; other site 279238007880 sequence-specific DNA binding site [nucleotide binding]; other site 279238007881 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 279238007882 Phage major tail protein 2; Region: Phage_tail_2; cl11463 279238007883 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 279238007884 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 279238007885 catalytic residue [active] 279238007886 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 279238007887 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 279238007888 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 279238007889 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 279238007890 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 279238007891 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 279238007892 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 279238007893 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 279238007894 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 279238007895 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 279238007896 GST_N family, unknown subfamily 4; 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_4; cd03056 279238007897 putative C-terminal domain interface [polypeptide binding]; other site 279238007898 putative GSH binding site (G-site) [chemical binding]; other site 279238007899 putative dimer interface [polypeptide binding]; other site 279238007900 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 279238007901 putative N-terminal domain interface [polypeptide binding]; other site 279238007902 putative dimer interface [polypeptide binding]; other site 279238007903 putative substrate binding pocket (H-site) [chemical binding]; other site 279238007904 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 279238007905 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 279238007906 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 279238007907 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 279238007908 FAD binding pocket [chemical binding]; other site 279238007909 FAD binding motif [chemical binding]; other site 279238007910 phosphate binding motif [ion binding]; other site 279238007911 beta-alpha-beta structure motif; other site 279238007912 NAD binding pocket [chemical binding]; other site 279238007913 Heme binding pocket [chemical binding]; other site 279238007914 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 279238007915 catalytic loop [active] 279238007916 iron binding site [ion binding]; other site 279238007917 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 279238007918 SnoaL-like domain; Region: SnoaL_2; pfam12680 279238007919 transcriptional regulator; Provisional; Region: PRK10632 279238007920 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238007921 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 279238007922 putative effector binding pocket; other site 279238007923 putative dimerization interface [polypeptide binding]; other site 279238007924 SnoaL-like domain; Region: SnoaL_4; pfam13577 279238007925 oxidoreductase; Provisional; Region: PRK06196 279238007926 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 279238007927 putative NAD(P) binding site [chemical binding]; other site 279238007928 active site 279238007929 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 279238007930 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 279238007931 putative NAD(P) binding site [chemical binding]; other site 279238007932 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279238007933 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238007934 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 279238007935 dimerization interface [polypeptide binding]; other site 279238007936 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 279238007937 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 279238007938 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 279238007939 DNA binding residues [nucleotide binding] 279238007940 dimerization interface [polypeptide binding]; other site 279238007941 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 279238007942 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 279238007943 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 279238007944 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 279238007945 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 279238007946 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 279238007947 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 279238007948 Uncharacterized conserved protein [Function unknown]; Region: COG2308 279238007949 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 279238007950 The MopB_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_1; cd02762 279238007951 putative [Fe4-S4] binding site [ion binding]; other site 279238007952 putative molybdopterin cofactor binding site [chemical binding]; other site 279238007953 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 279238007954 putative molybdopterin cofactor binding site; other site 279238007955 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 279238007956 heme-binding site [chemical binding]; other site 279238007957 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 279238007958 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 279238007959 excinuclease ABC subunit B; Provisional; Region: PRK05298 279238007960 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 279238007961 ATP binding site [chemical binding]; other site 279238007962 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 279238007963 nucleotide binding region [chemical binding]; other site 279238007964 ATP-binding site [chemical binding]; other site 279238007965 Ultra-violet resistance protein B; Region: UvrB; pfam12344 279238007966 UvrB/uvrC motif; Region: UVR; pfam02151 279238007967 Uncharacterized conserved protein [Function unknown]; Region: COG3743 279238007968 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 279238007969 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 279238007970 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 279238007971 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 279238007972 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 279238007973 UGMP family protein; Validated; Region: PRK09604 279238007974 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 279238007975 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 279238007976 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; cl17708 279238007977 domain interfaces; other site 279238007978 active site 279238007979 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 279238007980 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 279238007981 active site 279238007982 Mitochondrial inner membrane protein; Region: Mitofilin; pfam09731 279238007983 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 279238007984 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 279238007985 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 279238007986 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 279238007987 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 279238007988 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 279238007989 DsbD alpha interface [polypeptide binding]; other site 279238007990 catalytic residues [active] 279238007991 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279238007992 classical (c) SDRs; Region: SDR_c; cd05233 279238007993 NAD(P) binding site [chemical binding]; other site 279238007994 active site 279238007995 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 279238007996 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 279238007997 CAP-like domain; other site 279238007998 active site 279238007999 primary dimer interface [polypeptide binding]; other site 279238008000 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 279238008001 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 279238008002 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 279238008003 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 279238008004 active site 279238008005 NAD binding site [chemical binding]; other site 279238008006 metal binding site [ion binding]; metal-binding site 279238008007 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 279238008008 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 279238008009 catalytic loop [active] 279238008010 iron binding site [ion binding]; other site 279238008011 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; cl00321 279238008012 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 279238008013 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 279238008014 catalytic residue [active] 279238008015 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; cl00321 279238008016 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 279238008017 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 279238008018 catalytic residue [active] 279238008019 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 279238008020 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 279238008021 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 279238008022 classical (c) SDRs; Region: SDR_c; cd05233 279238008023 NAD(P) binding site [chemical binding]; other site 279238008024 active site 279238008025 Mycobacterium tuberculosis aldehyde dehydrogenase AldA-like; Region: ALDH_AldA-Rv0768; cd07139 279238008026 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 279238008027 NAD binding site [chemical binding]; other site 279238008028 catalytic residues [active] 279238008029 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 279238008030 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238008031 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 279238008032 N-terminal plug; other site 279238008033 ligand-binding site [chemical binding]; other site 279238008034 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 279238008035 MarR family; Region: MarR_2; cl17246 279238008036 SnoaL-like domain; Region: SnoaL_4; pfam13577 279238008037 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 279238008038 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 279238008039 GIY-YIG motif/motif A; other site 279238008040 putative active site [active] 279238008041 putative metal binding site [ion binding]; other site 279238008042 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 279238008043 NmrA-like family; Region: NmrA; pfam05368 279238008044 NADP binding site [chemical binding]; other site 279238008045 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 279238008046 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 279238008047 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 279238008048 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 279238008049 Subunit B of the Class III extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of protocatechuate; Region: PCA_45_Dioxygenase_B; cd07364 279238008050 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 279238008051 active site 279238008052 Fe(II) binding site [ion binding]; other site 279238008053 dimer interface [polypeptide binding]; other site 279238008054 tetramer interface [polypeptide binding]; other site 279238008055 The A subunit of Protocatechuate 4,5-dioxygenase (LigAB) is the smaller, non-catalytic subunit; Region: PCA_45_Doxase_A; cd07924 279238008056 dimer interface [polypeptide binding]; other site 279238008057 tetramer interface [polypeptide binding]; other site 279238008058 active site 279238008059 Amidohydrolase; Region: Amidohydro_2; pfam04909 279238008060 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 279238008061 Domain of unknown function (DUF1932); Region: DUF1932; pfam09130 279238008062 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279238008063 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238008064 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238008065 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 279238008066 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 279238008067 dimerization interface [polypeptide binding]; other site 279238008068 hypothetical protein; Provisional; Region: PRK09262 279238008069 hypothetical protein; Validated; Region: PRK06201 279238008070 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 279238008071 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 279238008072 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 279238008073 active site 279238008074 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 279238008075 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 279238008076 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 279238008077 dimerization interface [polypeptide binding]; other site 279238008078 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 279238008079 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 279238008080 dimer interface [polypeptide binding]; other site 279238008081 putative CheW interface [polypeptide binding]; other site 279238008082 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 279238008083 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 279238008084 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 279238008085 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 279238008086 Metallo-dependent hydrolases, subgroup A 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_A; cd01299 279238008087 active site 279238008088 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 279238008089 Clp amino terminal domain; Region: Clp_N; pfam02861 279238008090 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 279238008091 Walker A motif; other site 279238008092 ATP binding site [chemical binding]; other site 279238008093 Walker B motif; other site 279238008094 arginine finger; other site 279238008095 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 279238008096 Walker A motif; other site 279238008097 ATP binding site [chemical binding]; other site 279238008098 Walker B motif; other site 279238008099 arginine finger; other site 279238008100 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 279238008101 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 279238008102 PA_M28_1_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 1. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_1; cd04820 279238008103 PA/protease or protease-like domain interface [polypeptide binding]; other site 279238008104 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_2; cd05661 279238008105 Peptidase family M28; Region: Peptidase_M28; pfam04389 279238008106 metal binding site [ion binding]; metal-binding site 279238008107 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 279238008108 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 279238008109 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 279238008110 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 279238008111 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 279238008112 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 279238008113 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 279238008114 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 279238008115 GatB domain; Region: GatB_Yqey; smart00845 279238008116 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 279238008117 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 279238008118 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 279238008119 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 279238008120 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 279238008121 CrcB-like protein; Region: CRCB; cl09114 279238008122 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 279238008123 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 279238008124 active site 279238008125 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 279238008126 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 279238008127 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 279238008128 motif II; other site 279238008129 ATP12 chaperone protein; Region: ATP12; pfam07542 279238008130 Protein of unknown function (DUF330); Region: DUF330; cl01135 279238008131 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 279238008132 mce related protein; Region: MCE; pfam02470 279238008133 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 279238008134 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 279238008135 Walker A/P-loop; other site 279238008136 ATP binding site [chemical binding]; other site 279238008137 Q-loop/lid; other site 279238008138 ABC transporter signature motif; other site 279238008139 Walker B; other site 279238008140 D-loop; other site 279238008141 H-loop/switch region; other site 279238008142 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 279238008143 Permease; Region: Permease; pfam02405 279238008144 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 279238008145 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 279238008146 active site 279238008147 HIGH motif; other site 279238008148 nucleotide binding site [chemical binding]; other site 279238008149 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 279238008150 active site 279238008151 KMSKS motif; other site 279238008152 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 279238008153 tRNA binding surface [nucleotide binding]; other site 279238008154 anticodon binding site; other site 279238008155 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 279238008156 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 279238008157 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 279238008158 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 279238008159 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 279238008160 dimer interface [polypeptide binding]; other site 279238008161 ssDNA binding site [nucleotide binding]; other site 279238008162 tetramer (dimer of dimers) interface [polypeptide binding]; other site 279238008163 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 279238008164 ferrous iron transporter FeoB; Region: feoB; TIGR00437 279238008165 G1 box; other site 279238008166 GTP/Mg2+ binding site [chemical binding]; other site 279238008167 Switch I region; other site 279238008168 G2 box; other site 279238008169 G3 box; other site 279238008170 Switch II region; other site 279238008171 G4 box; other site 279238008172 Nucleoside recognition; Region: Gate; pfam07670 279238008173 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 279238008174 Nucleoside recognition; Region: Gate; pfam07670 279238008175 FeoA domain; Region: FeoA; pfam04023 279238008176 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 279238008177 COQ9; Region: COQ9; pfam08511 279238008178 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 279238008179 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 279238008180 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 279238008181 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 279238008182 Cu(I) binding site [ion binding]; other site 279238008183 hypothetical protein; Provisional; Region: PRK05170 279238008184 Protein of unknown function DUF45; Region: DUF45; pfam01863 279238008185 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 279238008186 catalytic motif [active] 279238008187 Zn binding site [ion binding]; other site 279238008188 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 279238008189 RibD C-terminal domain; Region: RibD_C; cl17279 279238008190 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 279238008191 Lumazine binding domain; Region: Lum_binding; pfam00677 279238008192 Lumazine binding domain; Region: Lum_binding; pfam00677 279238008193 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 279238008194 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 279238008195 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 279238008196 FAD binding site [chemical binding]; other site 279238008197 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 279238008198 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 279238008199 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 279238008200 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 279238008201 putative active site [active] 279238008202 putative substrate binding site [chemical binding]; other site 279238008203 putative cosubstrate binding site; other site 279238008204 catalytic site [active] 279238008205 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_9; cd07245 279238008206 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 279238008207 dimer interface [polypeptide binding]; other site 279238008208 putative metal binding site [ion binding]; other site 279238008209 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 279238008210 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 279238008211 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 279238008212 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 279238008213 C-terminal domain interface [polypeptide binding]; other site 279238008214 GSH binding site (G-site) [chemical binding]; other site 279238008215 dimer interface [polypeptide binding]; other site 279238008216 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 279238008217 N-terminal domain interface [polypeptide binding]; other site 279238008218 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279238008219 classical (c) SDRs; Region: SDR_c; cd05233 279238008220 NAD(P) binding site [chemical binding]; other site 279238008221 active site 279238008222 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 279238008223 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 279238008224 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 279238008225 NAD(P) binding site [chemical binding]; other site 279238008226 catalytic residues [active] 279238008227 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 279238008228 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 279238008229 Trp docking motif [polypeptide binding]; other site 279238008230 cytochrome domain interface [polypeptide binding]; other site 279238008231 active site 279238008232 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 279238008233 acyl-CoA synthetase; Validated; Region: PRK06188 279238008234 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 279238008235 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 279238008236 acyl-activating enzyme (AAE) consensus motif; other site 279238008237 putative AMP binding site [chemical binding]; other site 279238008238 putative active site [active] 279238008239 putative CoA binding site [chemical binding]; other site 279238008240 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 279238008241 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 279238008242 C-terminal domain interface [polypeptide binding]; other site 279238008243 GSH binding site (G-site) [chemical binding]; other site 279238008244 dimer interface [polypeptide binding]; other site 279238008245 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 279238008246 N-terminal domain interface [polypeptide binding]; other site 279238008247 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 279238008248 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 279238008249 C-terminal domain interface [polypeptide binding]; other site 279238008250 GSH binding site (G-site) [chemical binding]; other site 279238008251 dimer interface [polypeptide binding]; other site 279238008252 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 279238008253 N-terminal domain interface [polypeptide binding]; other site 279238008254 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 279238008255 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 279238008256 FAD binding domain; Region: FAD_binding_4; pfam01565 279238008257 Protein of unknown function (DUF3237); Region: DUF3237; pfam11578 279238008258 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 279238008259 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 279238008260 Trp docking motif [polypeptide binding]; other site 279238008261 cytochrome domain interface [polypeptide binding]; other site 279238008262 active site 279238008263 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 279238008264 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 279238008265 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 279238008266 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 279238008267 classical (c) SDRs; Region: SDR_c; cd05233 279238008268 NAD(P) binding site [chemical binding]; other site 279238008269 active site 279238008270 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 279238008271 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 279238008272 putative active site [active] 279238008273 putative dimer interface [polypeptide binding]; other site 279238008274 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 279238008275 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 279238008276 ligand binding site [chemical binding]; other site 279238008277 flexible hinge region; other site 279238008278 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 279238008279 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 279238008280 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 279238008281 putative hydrophobic ligand binding site [chemical binding]; other site 279238008282 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 279238008283 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 279238008284 C-terminal domain interface [polypeptide binding]; other site 279238008285 GSH binding site (G-site) [chemical binding]; other site 279238008286 dimer interface [polypeptide binding]; other site 279238008287 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 279238008288 N-terminal domain interface [polypeptide binding]; other site 279238008289 dimer interface [polypeptide binding]; other site 279238008290 substrate binding pocket (H-site) [chemical binding]; other site 279238008291 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 279238008292 dimer interface [polypeptide binding]; other site 279238008293 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 279238008294 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 279238008295 putative C-terminal domain interface [polypeptide binding]; other site 279238008296 putative GSH binding site (G-site) [chemical binding]; other site 279238008297 putative dimer interface [polypeptide binding]; other site 279238008298 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 279238008299 dimer interface [polypeptide binding]; other site 279238008300 N-terminal domain interface [polypeptide binding]; other site 279238008301 putative substrate binding pocket (H-site) [chemical binding]; other site 279238008302 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 279238008303 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 279238008304 C-terminal domain interface [polypeptide binding]; other site 279238008305 GSH binding site (G-site) [chemical binding]; other site 279238008306 dimer interface [polypeptide binding]; other site 279238008307 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 279238008308 N-terminal domain interface [polypeptide binding]; other site 279238008309 dimer interface [polypeptide binding]; other site 279238008310 substrate binding pocket (H-site) [chemical binding]; other site 279238008311 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 279238008312 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 279238008313 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 279238008314 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 279238008315 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 279238008316 NADP binding site [chemical binding]; other site 279238008317 dimer interface [polypeptide binding]; other site 279238008318 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 279238008319 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 279238008320 dimerization interface 3.5A [polypeptide binding]; other site 279238008321 active site 279238008322 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 279238008323 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 279238008324 putative active site [active] 279238008325 substrate binding site [chemical binding]; other site 279238008326 putative cosubstrate binding site; other site 279238008327 catalytic site [active] 279238008328 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 279238008329 substrate binding site [chemical binding]; other site 279238008330 recombination protein RecR; Reviewed; Region: recR; PRK00076 279238008331 RecR protein; Region: RecR; pfam02132 279238008332 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 279238008333 putative active site [active] 279238008334 putative metal-binding site [ion binding]; other site 279238008335 tetramer interface [polypeptide binding]; other site 279238008336 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 279238008337 active site 279238008338 catalytic residues [active] 279238008339 metal binding site [ion binding]; metal-binding site 279238008340 RmuC family; Region: RmuC; pfam02646 279238008341 META domain; Region: META; pfam03724 279238008342 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 279238008343 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 279238008344 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 279238008345 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 279238008346 dimerization domain swap beta strand [polypeptide binding]; other site 279238008347 regulatory protein interface [polypeptide binding]; other site 279238008348 active site 279238008349 regulatory phosphorylation site [posttranslational modification]; other site 279238008350 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 279238008351 active pocket/dimerization site; other site 279238008352 active site 279238008353 phosphorylation site [posttranslational modification] 279238008354 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 279238008355 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 279238008356 Hpr binding site; other site 279238008357 active site 279238008358 homohexamer subunit interaction site [polypeptide binding]; other site 279238008359 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 279238008360 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 279238008361 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 279238008362 dimer interface [polypeptide binding]; other site 279238008363 phosphorylation site [posttranslational modification] 279238008364 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 279238008365 ATP binding site [chemical binding]; other site 279238008366 Mg2+ binding site [ion binding]; other site 279238008367 G-X-G motif; other site 279238008368 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 279238008369 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 279238008370 active site 279238008371 phosphorylation site [posttranslational modification] 279238008372 intermolecular recognition site; other site 279238008373 dimerization interface [polypeptide binding]; other site 279238008374 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 279238008375 DNA binding site [nucleotide binding] 279238008376 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 279238008377 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 279238008378 active site 279238008379 substrate-binding site [chemical binding]; other site 279238008380 metal-binding site [ion binding] 279238008381 ATP binding site [chemical binding]; other site 279238008382 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 279238008383 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 279238008384 heme binding site [chemical binding]; other site 279238008385 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 279238008386 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 279238008387 HSP70 interaction site [polypeptide binding]; other site 279238008388 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 279238008389 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 279238008390 nudix motif; other site 279238008391 Pirin-related protein [General function prediction only]; Region: COG1741 279238008392 Pirin; Region: Pirin; pfam02678 279238008393 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 279238008394 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 279238008395 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_3; cd09002 279238008396 active site 279238008397 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 279238008398 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 279238008399 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238008400 NAD(P) binding site [chemical binding]; other site 279238008401 active site 279238008402 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 279238008403 Uncharacterized protein conserved in bacteria (DUF2332); Region: DUF2332; pfam10094 279238008404 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 279238008405 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 279238008406 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 279238008407 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 279238008408 NAD binding site [chemical binding]; other site 279238008409 dimerization interface [polypeptide binding]; other site 279238008410 product binding site; other site 279238008411 substrate binding site [chemical binding]; other site 279238008412 zinc binding site [ion binding]; other site 279238008413 catalytic residues [active] 279238008414 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 279238008415 S-formylglutathione hydrolase; Region: PLN02442 279238008416 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 279238008417 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 279238008418 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 279238008419 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 279238008420 CopC domain; Region: CopC; pfam04234 279238008421 Heavy-metal resistance; Region: Metal_resist; pfam13801 279238008422 dimer interface [polypeptide binding]; other site 279238008423 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 279238008424 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279238008425 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 279238008426 DNA binding residues [nucleotide binding] 279238008427 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 279238008428 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 279238008429 Multicopper oxidase; Region: Cu-oxidase; pfam00394 279238008430 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 279238008431 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 279238008432 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 279238008433 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 279238008434 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 279238008435 metal binding site [ion binding]; metal-binding site 279238008436 putative dimer interface [polypeptide binding]; other site 279238008437 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 279238008438 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 279238008439 putative DNA binding site [nucleotide binding]; other site 279238008440 putative Zn2+ binding site [ion binding]; other site 279238008441 AsnC family; Region: AsnC_trans_reg; pfam01037 279238008442 hypothetical protein; Provisional; Region: PRK05965 279238008443 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 279238008444 inhibitor-cofactor binding pocket; inhibition site 279238008445 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279238008446 catalytic residue [active] 279238008447 tartrate dehydrogenase; Region: TTC; TIGR02089 279238008448 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 279238008449 succinic semialdehyde dehydrogenase; Region: PLN02278 279238008450 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 279238008451 tetramerization interface [polypeptide binding]; other site 279238008452 NAD(P) binding site [chemical binding]; other site 279238008453 catalytic residues [active] 279238008454 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 279238008455 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279238008456 Coenzyme A binding pocket [chemical binding]; other site 279238008457 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 279238008458 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 279238008459 NAD(P) binding site [chemical binding]; other site 279238008460 catalytic residues [active] 279238008461 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 279238008462 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 279238008463 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 279238008464 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 279238008465 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 279238008466 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 279238008467 Walker A/P-loop; other site 279238008468 ATP binding site [chemical binding]; other site 279238008469 Q-loop/lid; other site 279238008470 ABC transporter signature motif; other site 279238008471 Walker B; other site 279238008472 D-loop; other site 279238008473 H-loop/switch region; other site 279238008474 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 279238008475 Walker A/P-loop; other site 279238008476 ATP binding site [chemical binding]; other site 279238008477 Q-loop/lid; other site 279238008478 ABC transporter signature motif; other site 279238008479 Walker B; other site 279238008480 D-loop; other site 279238008481 H-loop/switch region; other site 279238008482 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 279238008483 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 279238008484 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 279238008485 dimer interface [polypeptide binding]; other site 279238008486 conserved gate region; other site 279238008487 ABC-ATPase subunit interface; other site 279238008488 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 279238008489 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 279238008490 dimer interface [polypeptide binding]; other site 279238008491 conserved gate region; other site 279238008492 putative PBP binding loops; other site 279238008493 ABC-ATPase subunit interface; other site 279238008494 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 279238008495 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_17; cd08503 279238008496 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 279238008497 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 279238008498 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 279238008499 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 279238008500 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 279238008501 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 279238008502 putative ligand binding site [chemical binding]; other site 279238008503 NAD binding site [chemical binding]; other site 279238008504 dimerization interface [polypeptide binding]; other site 279238008505 catalytic site [active] 279238008506 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 279238008507 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 279238008508 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 279238008509 N-terminal plug; other site 279238008510 ligand-binding site [chemical binding]; other site 279238008511 Predicted membrane protein [Function unknown]; Region: COG3503 279238008512 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 279238008513 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 279238008514 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 279238008515 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 279238008516 C factor cell-cell signaling protein; Provisional; Region: PRK09009 279238008517 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 279238008518 NADP binding site [chemical binding]; other site 279238008519 homodimer interface [polypeptide binding]; other site 279238008520 active site 279238008521 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 279238008522 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 279238008523 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 279238008524 FAD binding domain; Region: FAD_binding_4; pfam01565 279238008525 short chain dehydrogenase; Provisional; Region: PRK06172 279238008526 classical (c) SDRs; Region: SDR_c; cd05233 279238008527 NAD(P) binding site [chemical binding]; other site 279238008528 active site 279238008529 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 279238008530 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 279238008531 active site 279238008532 SAM binding site [chemical binding]; other site 279238008533 homodimer interface [polypeptide binding]; other site 279238008534 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 279238008535 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 279238008536 [4Fe-4S] binding site [ion binding]; other site 279238008537 molybdopterin cofactor binding site; other site 279238008538 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 279238008539 molybdopterin cofactor binding site; other site 279238008540 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 279238008541 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 279238008542 [2Fe-2S] cluster binding site [ion binding]; other site 279238008543 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 279238008544 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 279238008545 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 279238008546 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 279238008547 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 279238008548 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 279238008549 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238008550 putative substrate translocation pore; other site 279238008551 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 279238008552 active site 279238008553 Protein kinase domain; Region: Pkinase; pfam00069 279238008554 Catalytic domain of Protein Kinases; Region: PKc; cd00180 279238008555 active site 279238008556 ATP binding site [chemical binding]; other site 279238008557 substrate binding site [chemical binding]; other site 279238008558 activation loop (A-loop); other site 279238008559 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 279238008560 NMT1-like family; Region: NMT1_2; pfam13379 279238008561 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 279238008562 ANTAR domain; Region: ANTAR; pfam03861 279238008563 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 279238008564 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 279238008565 catalytic triad [active] 279238008566 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 279238008567 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 279238008568 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 279238008569 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 279238008570 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 279238008571 Head binding; Region: Head_binding; pfam09008 279238008572 Peptidase M15; Region: Peptidase_M15_3; cl01194 279238008573 Phage stabilisation protein; Region: Phage_stabilise; pfam11134 279238008574 P22 tail accessory factor; Region: P22_Tail-4; pfam11650 279238008575 P22 coat protein - gene protein 5; Region: P22_CoatProtein; pfam11651 279238008576 coat protein; Region: PHA01511 279238008577 Bacteriophage, scaffolding protein; Region: Phage-scaffold; pfam09306 279238008578 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 279238008579 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 279238008580 Helix-turn-helix domain; Region: HTH_36; pfam13730 279238008581 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 279238008582 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 279238008583 DnaA box-binding interface [nucleotide binding]; other site 279238008584 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 279238008585 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 279238008586 sequence-specific DNA binding site [nucleotide binding]; other site 279238008587 salt bridge; other site 279238008588 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 279238008589 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 279238008590 non-specific DNA binding site [nucleotide binding]; other site 279238008591 salt bridge; other site 279238008592 sequence-specific DNA binding site [nucleotide binding]; other site 279238008593 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 279238008594 Catalytic site [active] 279238008595 Protein of unknown function (DUF968); Region: DUF968; pfam06147 279238008596 NinB protein; Region: NinB; pfam05772 279238008597 Predicted membrane protein [Function unknown]; Region: COG3174 279238008598 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 279238008599 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 279238008600 Bacterial Ig-like domain (DUF1927); Region: DUF1927; pfam09099 279238008601 Domain of unknown function (DUF1928); Region: DUF1928; pfam09100 279238008602 quinohemoprotein amine dehydrogenase maturation protein; Region: quino_hemo_SAM; TIGR03906 279238008603 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 279238008604 FeS/SAM binding site; other site 279238008605 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 279238008606 Quinohemoprotein amine dehydrogenase, gamma subunit; Region: QH-AmDH_gamma; pfam08992 279238008607 quinohemoprotein amine dehydrogenase, beta subunit; Region: QH_beta; TIGR03907 279238008608 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 279238008609 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 279238008610 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 279238008611 Walker A/P-loop; other site 279238008612 ATP binding site [chemical binding]; other site 279238008613 Q-loop/lid; other site 279238008614 ABC transporter signature motif; other site 279238008615 Walker B; other site 279238008616 D-loop; other site 279238008617 H-loop/switch region; other site 279238008618 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 279238008619 active site 279238008620 catalytic residues [active] 279238008621 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 279238008622 TPR motif; other site 279238008623 binding surface 279238008624 Tetratricopeptide repeat; Region: TPR_16; pfam13432 279238008625 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 279238008626 Tetratricopeptide repeat; Region: TPR_16; pfam13432 279238008627 TPR motif; other site 279238008628 binding surface 279238008629 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 279238008630 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238008631 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 279238008632 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 279238008633 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 279238008634 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 279238008635 dimer interface [polypeptide binding]; other site 279238008636 active site 279238008637 metal binding site [ion binding]; metal-binding site 279238008638 glutathione binding site [chemical binding]; other site 279238008639 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 279238008640 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 279238008641 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 279238008642 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 279238008643 active site 279238008644 metal binding site [ion binding]; metal-binding site 279238008645 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238008646 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 279238008647 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 279238008648 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 279238008649 Transglycosylase; Region: Transgly; cl17702 279238008650 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 279238008651 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 279238008652 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279238008653 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 279238008654 DNA binding residues [nucleotide binding] 279238008655 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 279238008656 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 279238008657 RNA binding surface [nucleotide binding]; other site 279238008658 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 279238008659 active site 279238008660 Carbohydrate-selective porin, OprB family; Region: OprB; cl17816 279238008661 HAMP domain; Region: HAMP; pfam00672 279238008662 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 279238008663 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 279238008664 dimer interface [polypeptide binding]; other site 279238008665 putative CheW interface [polypeptide binding]; other site 279238008666 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 279238008667 MPN+ (JAMM) motif; other site 279238008668 Zinc-binding site [ion binding]; other site 279238008669 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 279238008670 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 279238008671 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 279238008672 amidase catalytic site [active] 279238008673 Zn binding residues [ion binding]; other site 279238008674 substrate binding site [chemical binding]; other site 279238008675 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 279238008676 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 279238008677 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 279238008678 Fasciclin domain; Region: Fasciclin; pfam02469 279238008679 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 279238008680 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 279238008681 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 279238008682 Walker A motif; other site 279238008683 ATP binding site [chemical binding]; other site 279238008684 Walker B motif; other site 279238008685 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 279238008686 Clp protease; Region: CLP_protease; pfam00574 279238008687 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 279238008688 oligomer interface [polypeptide binding]; other site 279238008689 active site residues [active] 279238008690 PilZ domain; Region: PilZ; pfam07238 279238008691 amidase; Provisional; Region: PRK08137 279238008692 Amidase; Region: Amidase; cl11426 279238008693 trigger factor; Provisional; Region: tig; PRK01490 279238008694 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 279238008695 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 279238008696 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 279238008697 tandem repeat interface [polypeptide binding]; other site 279238008698 oligomer interface [polypeptide binding]; other site 279238008699 active site residues [active] 279238008700 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 279238008701 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 279238008702 tandem repeat interface [polypeptide binding]; other site 279238008703 oligomer interface [polypeptide binding]; other site 279238008704 active site residues [active] 279238008705 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 279238008706 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 279238008707 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 279238008708 dihydroorotase; Validated; Region: pyrC; PRK09357 279238008709 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 279238008710 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 279238008711 active site 279238008712 Tetratricopeptide repeat; Region: TPR_16; pfam13432 279238008713 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 279238008714 TPR motif; other site 279238008715 binding surface 279238008716 Sporulation related domain; Region: SPOR; pfam05036 279238008717 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 279238008718 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 279238008719 P-loop; other site 279238008720 Magnesium ion binding site [ion binding]; other site 279238008721 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 279238008722 Sel1-like repeats; Region: SEL1; smart00671 279238008723 Sporulation related domain; Region: SPOR; pfam05036 279238008724 Predicted membrane protein [Function unknown]; Region: COG2311 279238008725 Protein of unknown function (DUF418); Region: DUF418; pfam04235 279238008726 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 279238008727 putative active site [active] 279238008728 catalytic site [active] 279238008729 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 279238008730 PLD-like domain; Region: PLDc_2; pfam13091 279238008731 putative active site [active] 279238008732 catalytic site [active] 279238008733 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 279238008734 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 279238008735 putative ADP-binding pocket [chemical binding]; other site 279238008736 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 279238008737 short chain dehydrogenase; Provisional; Region: PRK07576 279238008738 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238008739 NAD(P) binding site [chemical binding]; other site 279238008740 active site 279238008741 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238008742 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 279238008743 NAD(P) binding site [chemical binding]; other site 279238008744 active site 279238008745 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 279238008746 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 279238008747 FMN binding site [chemical binding]; other site 279238008748 substrate binding site [chemical binding]; other site 279238008749 putative catalytic residue [active] 279238008750 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 279238008751 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279238008752 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 279238008753 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 279238008754 DNA binding residues [nucleotide binding] 279238008755 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 279238008756 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238008757 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 279238008758 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 279238008759 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 279238008760 C-terminal domain interface [polypeptide binding]; other site 279238008761 GSH binding site (G-site) [chemical binding]; other site 279238008762 dimer interface [polypeptide binding]; other site 279238008763 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 279238008764 N-terminal domain interface [polypeptide binding]; other site 279238008765 dimer interface [polypeptide binding]; other site 279238008766 substrate binding pocket (H-site) [chemical binding]; other site 279238008767 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 279238008768 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 279238008769 putative NAD(P) binding site [chemical binding]; other site 279238008770 active site 279238008771 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 279238008772 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 279238008773 classical (c) SDRs; Region: SDR_c; cd05233 279238008774 NAD(P) binding site [chemical binding]; other site 279238008775 active site 279238008776 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 279238008777 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 279238008778 N-terminal plug; other site 279238008779 ligand-binding site [chemical binding]; other site 279238008780 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 279238008781 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238008782 Gram-negative bacterial tonB protein; Region: TonB; cl10048 279238008783 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 279238008784 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 279238008785 active site 279238008786 iron coordination sites [ion binding]; other site 279238008787 substrate binding pocket [chemical binding]; other site 279238008788 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 279238008789 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 279238008790 active site 279238008791 putative substrate binding pocket [chemical binding]; other site 279238008792 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 279238008793 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 279238008794 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 279238008795 DNA binding residues [nucleotide binding] 279238008796 dimerization interface [polypeptide binding]; other site 279238008797 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 279238008798 homotrimer interaction site [polypeptide binding]; other site 279238008799 putative active site [active] 279238008800 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; cl00233 279238008801 catalytic center binding site [active] 279238008802 ATP binding site [chemical binding]; other site 279238008803 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 279238008804 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 279238008805 putative active site; other site 279238008806 catalytic triad [active] 279238008807 putative dimer interface [polypeptide binding]; other site 279238008808 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 279238008809 methionine sulfoxide reductase A; Provisional; Region: PRK14054 279238008810 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 279238008811 16S rRNA methyltransferase B; Provisional; Region: PRK10901 279238008812 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 279238008813 S-adenosylmethionine binding site [chemical binding]; other site 279238008814 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 279238008815 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 279238008816 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 279238008817 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 279238008818 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 279238008819 PilZ domain; Region: PilZ; pfam07238 279238008820 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 279238008821 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 279238008822 Sel1 repeat; Region: Sel1; cl02723 279238008823 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 279238008824 Protein of unknown function, DUF482; Region: DUF482; pfam04339 279238008825 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 279238008826 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 279238008827 active site 279238008828 catalytic site [active] 279238008829 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_1; cd02199 279238008830 homotrimer interaction site [polypeptide binding]; other site 279238008831 putative active site [active] 279238008832 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 279238008833 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 279238008834 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 279238008835 active site 279238008836 phosphorylation site [posttranslational modification] 279238008837 intermolecular recognition site; other site 279238008838 dimerization interface [polypeptide binding]; other site 279238008839 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 279238008840 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 279238008841 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 279238008842 substrate-cofactor binding pocket; other site 279238008843 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279238008844 catalytic residue [active] 279238008845 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_4; cd04501 279238008846 active site 279238008847 catalytic triad [active] 279238008848 oxyanion hole [active] 279238008849 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 279238008850 pseudouridine synthase; Region: TIGR00093 279238008851 active site 279238008852 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 279238008853 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 279238008854 putative C-terminal domain interface [polypeptide binding]; other site 279238008855 putative GSH binding site (G-site) [chemical binding]; other site 279238008856 putative dimer interface [polypeptide binding]; other site 279238008857 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 279238008858 N-terminal domain interface [polypeptide binding]; other site 279238008859 MltA-interacting protein MipA; Region: MipA; cl01504 279238008860 Predicted membrane protein [Function unknown]; Region: COG1238 279238008861 Uncharacterized conserved protein [Function unknown]; Region: COG5323 279238008862 Terminase-like family; Region: Terminase_6; pfam03237 279238008863 Phage-related protein [Function unknown]; Region: COG4695 279238008864 Phage portal protein; Region: Phage_portal; pfam04860 279238008865 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 279238008866 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 279238008867 Phage capsid family; Region: Phage_capsid; pfam05065 279238008868 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 279238008869 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 279238008870 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 279238008871 Phage major tail protein 2; Region: Phage_tail_2; pfam06199 279238008872 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 279238008873 Conserved hypothetical phage protein (DUF2376); Region: DUF2376; pfam09550 279238008874 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 279238008875 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 279238008876 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 279238008877 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 279238008878 Putative phage tail protein; Region: Phage-tail_3; pfam13550 279238008879 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 279238008880 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 279238008881 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 279238008882 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 279238008883 ligand binding site [chemical binding]; other site 279238008884 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 279238008885 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 279238008886 E-class dimer interface [polypeptide binding]; other site 279238008887 P-class dimer interface [polypeptide binding]; other site 279238008888 active site 279238008889 Cu2+ binding site [ion binding]; other site 279238008890 Zn2+ binding site [ion binding]; other site 279238008891 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238008892 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 279238008893 Ligand Binding Site [chemical binding]; other site 279238008894 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 279238008895 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 279238008896 dimerization interface [polypeptide binding]; other site 279238008897 domain crossover interface; other site 279238008898 redox-dependent activation switch; other site 279238008899 ornithine carbamoyltransferase; Provisional; Region: PRK00779 279238008900 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 279238008901 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 279238008902 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 279238008903 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 279238008904 inhibitor-cofactor binding pocket; inhibition site 279238008905 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279238008906 catalytic residue [active] 279238008907 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 279238008908 RNA-binding motif; other site 279238008909 DNA-binding site [nucleotide binding]; DNA binding site 279238008910 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 279238008911 DNA-binding site [nucleotide binding]; DNA binding site 279238008912 RNA-binding motif; other site 279238008913 Putative phosphatase (DUF442); Region: DUF442; cl17385 279238008914 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 279238008915 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 279238008916 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238008917 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238008918 WHG domain; Region: WHG; pfam13305 279238008919 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 279238008920 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 279238008921 N-terminal plug; other site 279238008922 ligand-binding site [chemical binding]; other site 279238008923 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 279238008924 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 279238008925 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 279238008926 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 279238008927 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 279238008928 active site 279238008929 homodimer interface [polypeptide binding]; other site 279238008930 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 279238008931 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 279238008932 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 279238008933 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 279238008934 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 279238008935 putative NAD(P) binding site [chemical binding]; other site 279238008936 active site 279238008937 putative substrate binding site [chemical binding]; other site 279238008938 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 279238008939 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 279238008940 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 279238008941 metal binding triad; other site 279238008942 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 279238008943 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 279238008944 metal binding triad; other site 279238008945 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 279238008946 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 279238008947 catalytic triad [active] 279238008948 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 279238008949 dinuclear metal binding motif [ion binding]; other site 279238008950 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 279238008951 Peptidase family M23; Region: Peptidase_M23; pfam01551 279238008952 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 279238008953 Fasciclin domain; Region: Fasciclin; pfam02469 279238008954 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 279238008955 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 279238008956 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 279238008957 acyl-activating enzyme (AAE) consensus motif; other site 279238008958 acyl-activating enzyme (AAE) consensus motif; other site 279238008959 putative AMP binding site [chemical binding]; other site 279238008960 putative active site [active] 279238008961 putative CoA binding site [chemical binding]; other site 279238008962 CoA binding site [chemical binding]; other site 279238008963 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 279238008964 Cytochrome P450; Region: p450; cl12078 279238008965 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 279238008966 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238008967 putative substrate translocation pore; other site 279238008968 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238008969 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 279238008970 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 279238008971 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 279238008972 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 279238008973 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 279238008974 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238008975 putative substrate translocation pore; other site 279238008976 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 279238008977 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 279238008978 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 279238008979 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 279238008980 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 279238008981 Ligand binding site [chemical binding]; other site 279238008982 Electron transfer flavoprotein domain; Region: ETF; pfam01012 279238008983 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 279238008984 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 279238008985 CoA-ligase; Region: Ligase_CoA; pfam00549 279238008986 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 279238008987 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 279238008988 active site 279238008989 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 279238008990 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 279238008991 active site 279238008992 catalytic tetrad [active] 279238008993 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 279238008994 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 279238008995 ligand binding site [chemical binding]; other site 279238008996 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 279238008997 Domain of unknown function DUF21; Region: DUF21; pfam01595 279238008998 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 279238008999 Transporter associated domain; Region: CorC_HlyC; smart01091 279238009000 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 279238009001 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 279238009002 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 279238009003 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 279238009004 active site 279238009005 dimer interface [polypeptide binding]; other site 279238009006 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 279238009007 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 279238009008 active site 279238009009 FMN binding site [chemical binding]; other site 279238009010 substrate binding site [chemical binding]; other site 279238009011 3Fe-4S cluster binding site [ion binding]; other site 279238009012 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 279238009013 domain interface; other site 279238009014 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 279238009015 PEP-CTERM/exosortase A-associated glycosyltransferase, Daro_2409 family; Region: stp3; TIGR04063 279238009016 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 279238009017 O-Antigen ligase; Region: Wzy_C; cl04850 279238009018 O-Antigen ligase; Region: Wzy_C; cl04850 279238009019 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 279238009020 putative active site [active] 279238009021 putative catalytic site [active] 279238009022 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 279238009023 Protein of unknown function (DUF3237); Region: DUF3237; pfam11578 279238009024 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 279238009025 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 279238009026 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 279238009027 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 279238009028 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 279238009029 Walker A/P-loop; other site 279238009030 ATP binding site [chemical binding]; other site 279238009031 Q-loop/lid; other site 279238009032 ABC transporter signature motif; other site 279238009033 Walker B; other site 279238009034 D-loop; other site 279238009035 H-loop/switch region; other site 279238009036 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 279238009037 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 279238009038 cofactor binding site; other site 279238009039 metal binding site [ion binding]; metal-binding site 279238009040 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 279238009041 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 279238009042 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 279238009043 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 279238009044 putative catalytic site [active] 279238009045 putative phosphate binding site [ion binding]; other site 279238009046 active site 279238009047 metal binding site A [ion binding]; metal-binding site 279238009048 DNA binding site [nucleotide binding] 279238009049 putative AP binding site [nucleotide binding]; other site 279238009050 putative metal binding site B [ion binding]; other site 279238009051 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 279238009052 dimerization interface [polypeptide binding]; other site 279238009053 active site 279238009054 Right handed beta helix region; Region: Beta_helix; pfam13229 279238009055 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 279238009056 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 279238009057 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 279238009058 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 279238009059 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 279238009060 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 279238009061 ATP binding site [chemical binding]; other site 279238009062 putative Mg++ binding site [ion binding]; other site 279238009063 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 279238009064 nucleotide binding region [chemical binding]; other site 279238009065 ATP-binding site [chemical binding]; other site 279238009066 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 279238009067 HRDC domain; Region: HRDC; pfam00570 279238009068 SnoaL-like domain; Region: SnoaL_3; pfam13474 279238009069 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; cd00531 279238009070 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 279238009071 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 279238009072 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 279238009073 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 279238009074 substrate binding pocket [chemical binding]; other site 279238009075 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 279238009076 B12 binding site [chemical binding]; other site 279238009077 cobalt ligand [ion binding]; other site 279238009078 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 279238009079 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 279238009080 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 279238009081 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 279238009082 FAD binding site [chemical binding]; other site 279238009083 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 279238009084 dimerization interface [polypeptide binding]; other site 279238009085 putative DNA binding site [nucleotide binding]; other site 279238009086 putative Zn2+ binding site [ion binding]; other site 279238009087 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 279238009088 S-adenosylmethionine binding site [chemical binding]; other site 279238009089 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 279238009090 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 279238009091 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 279238009092 NAD(P) binding site [chemical binding]; other site 279238009093 homotetramer interface [polypeptide binding]; other site 279238009094 homodimer interface [polypeptide binding]; other site 279238009095 active site 279238009096 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 279238009097 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 279238009098 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 279238009099 HIGH motif; other site 279238009100 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 279238009101 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 279238009102 active site 279238009103 KMSKS motif; other site 279238009104 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 279238009105 tRNA binding surface [nucleotide binding]; other site 279238009106 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 279238009107 Lipopolysaccharide-assembly; Region: LptE; pfam04390 279238009108 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 279238009109 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 279238009110 Bacterial sugar transferase; Region: Bac_transf; pfam02397 279238009111 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 279238009112 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 279238009113 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 279238009114 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 279238009115 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 279238009116 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 279238009117 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 279238009118 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 279238009119 SLBB domain; Region: SLBB; pfam10531 279238009120 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 279238009121 Chain length determinant protein; Region: Wzz; pfam02706 279238009122 Chain length determinant protein; Region: Wzz; cl15801 279238009123 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 279238009124 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 279238009125 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 279238009126 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 279238009127 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 279238009128 Probable Catalytic site; other site 279238009129 metal-binding site 279238009130 Theoretical model of a pro-apoptotic protein; Region: bcl-2I13; pfam12201 279238009131 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 279238009132 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 279238009133 Methyltransferase domain; Region: Methyltransf_23; pfam13489 279238009134 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 279238009135 S-adenosylmethionine binding site [chemical binding]; other site 279238009136 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 279238009137 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 279238009138 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 279238009139 putative ligand binding site [chemical binding]; other site 279238009140 putative catalytic site [active] 279238009141 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 279238009142 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 279238009143 NAD binding site [chemical binding]; other site 279238009144 substrate binding site [chemical binding]; other site 279238009145 homodimer interface [polypeptide binding]; other site 279238009146 active site 279238009147 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 279238009148 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238009149 NAD(P) binding site [chemical binding]; other site 279238009150 active site 279238009151 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 279238009152 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 279238009153 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 279238009154 substrate binding site; other site 279238009155 tetramer interface; other site 279238009156 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 279238009157 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 279238009158 Walker A/P-loop; other site 279238009159 ATP binding site [chemical binding]; other site 279238009160 Q-loop/lid; other site 279238009161 ABC transporter signature motif; other site 279238009162 Walker B; other site 279238009163 D-loop; other site 279238009164 H-loop/switch region; other site 279238009165 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 279238009166 active site 279238009167 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 279238009168 Ligand Binding Site [chemical binding]; other site 279238009169 Molecular Tunnel; other site 279238009170 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 279238009171 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 279238009172 SynChlorMet cassette protein ScmC; Region: SCM_chp_ScmC; TIGR04249 279238009173 OstA-like protein; Region: OstA; pfam03968 279238009174 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 279238009175 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 279238009176 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 279238009177 catalytic site [active] 279238009178 putative active site [active] 279238009179 putative substrate binding site [chemical binding]; other site 279238009180 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 279238009181 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 279238009182 Active Sites [active] 279238009183 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 279238009184 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 279238009185 CysD dimerization site [polypeptide binding]; other site 279238009186 G1 box; other site 279238009187 putative GEF interaction site [polypeptide binding]; other site 279238009188 GTP/Mg2+ binding site [chemical binding]; other site 279238009189 Switch I region; other site 279238009190 G2 box; other site 279238009191 G3 box; other site 279238009192 Switch II region; other site 279238009193 G4 box; other site 279238009194 G5 box; other site 279238009195 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 279238009196 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 279238009197 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 279238009198 ligand-binding site [chemical binding]; other site 279238009199 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 279238009200 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 279238009201 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 279238009202 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 279238009203 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 279238009204 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 279238009205 ligand binding site [chemical binding]; other site 279238009206 active site 279238009207 UGI interface [polypeptide binding]; other site 279238009208 catalytic site [active] 279238009209 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 279238009210 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 279238009211 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 279238009212 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 279238009213 active site 279238009214 HIGH motif; other site 279238009215 nucleotide binding site [chemical binding]; other site 279238009216 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 279238009217 active site 279238009218 KMSKS motif; other site 279238009219 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 279238009220 tRNA binding surface [nucleotide binding]; other site 279238009221 anticodon binding site; other site 279238009222 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 279238009223 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 279238009224 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 279238009225 active site 279238009226 Riboflavin kinase; Region: Flavokinase; smart00904 279238009227 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 279238009228 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 279238009229 active site 279238009230 dimer interface [polypeptide binding]; other site 279238009231 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 279238009232 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 279238009233 folate binding site [chemical binding]; other site 279238009234 NADP+ binding site [chemical binding]; other site 279238009235 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 279238009236 ATP-grasp domain; Region: ATP-grasp; pfam02222 279238009237 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 279238009238 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 279238009239 catalytic core [active] 279238009240 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 279238009241 Predicted acetyltransferase [General function prediction only]; Region: COG2388 279238009242 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 279238009243 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 279238009244 tetramer interface [polypeptide binding]; other site 279238009245 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279238009246 catalytic residue [active] 279238009247 EamA-like transporter family; Region: EamA; pfam00892 279238009248 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 279238009249 EamA-like transporter family; Region: EamA; pfam00892 279238009250 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 279238009251 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 279238009252 putative NAD(P) binding site [chemical binding]; other site 279238009253 aminopeptidase N; Provisional; Region: pepN; PRK14015 279238009254 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 279238009255 Zn binding site [ion binding]; other site 279238009256 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 279238009257 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 279238009258 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 279238009259 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 279238009260 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 279238009261 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 279238009262 NAD binding site [chemical binding]; other site 279238009263 homodimer interface [polypeptide binding]; other site 279238009264 active site 279238009265 substrate binding site [chemical binding]; other site 279238009266 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 279238009267 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 279238009268 active site 279238009269 Zn binding site [ion binding]; other site 279238009270 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 279238009271 ArsC family; Region: ArsC; pfam03960 279238009272 catalytic residues [active] 279238009273 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 279238009274 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 279238009275 N-terminal plug; other site 279238009276 ligand-binding site [chemical binding]; other site 279238009277 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 279238009278 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 279238009279 catalytic loop [active] 279238009280 iron binding site [ion binding]; other site 279238009281 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 279238009282 aldolase II superfamily protein; Provisional; Region: PRK07044 279238009283 intersubunit interface [polypeptide binding]; other site 279238009284 active site 279238009285 Zn2+ binding site [ion binding]; other site 279238009286 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 279238009287 HPP family; Region: HPP; pfam04982 279238009288 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 279238009289 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 279238009290 23S rRNA interface [nucleotide binding]; other site 279238009291 L3 interface [polypeptide binding]; other site 279238009292 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 279238009293 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 279238009294 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 279238009295 MerC mercury resistance protein; Region: MerC; pfam03203 279238009296 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional; Region: PRK11840 279238009297 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 279238009298 thiS-thiF/thiG interaction site; other site 279238009299 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 279238009300 ThiS interaction site; other site 279238009301 putative active site [active] 279238009302 tetramer interface [polypeptide binding]; other site 279238009303 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 279238009304 Malic enzyme, N-terminal domain; Region: malic; pfam00390 279238009305 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 279238009306 putative NAD(P) binding site [chemical binding]; other site 279238009307 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 279238009308 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 279238009309 MutS domain I; Region: MutS_I; pfam01624 279238009310 MutS domain II; Region: MutS_II; pfam05188 279238009311 MutS domain III; Region: MutS_III; pfam05192 279238009312 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 279238009313 Walker A/P-loop; other site 279238009314 ATP binding site [chemical binding]; other site 279238009315 Q-loop/lid; other site 279238009316 ABC transporter signature motif; other site 279238009317 Walker B; other site 279238009318 D-loop; other site 279238009319 H-loop/switch region; other site 279238009320 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK06026 279238009321 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase, putative; Region: MTA/SAH-nuc-hyp; TIGR01705 279238009322 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 279238009323 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 279238009324 Nucleoside recognition; Region: Gate; pfam07670 279238009325 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 279238009326 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 279238009327 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 279238009328 feedback inhibition sensing region; other site 279238009329 homohexameric interface [polypeptide binding]; other site 279238009330 nucleotide binding site [chemical binding]; other site 279238009331 N-acetyl-L-glutamate binding site [chemical binding]; other site 279238009332 YGGT family; Region: YGGT; pfam02325 279238009333 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 279238009334 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 279238009335 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 279238009336 homodimer interface [polypeptide binding]; other site 279238009337 NADP binding site [chemical binding]; other site 279238009338 substrate binding site [chemical binding]; other site 279238009339 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 279238009340 active site 279238009341 transcriptional regulator NarP; Provisional; Region: PRK10403 279238009342 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 279238009343 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 279238009344 S-adenosylmethionine binding site [chemical binding]; other site 279238009345 aspartate kinase; Reviewed; Region: PRK06635 279238009346 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 279238009347 putative nucleotide binding site [chemical binding]; other site 279238009348 putative catalytic residues [active] 279238009349 putative Mg ion binding site [ion binding]; other site 279238009350 putative aspartate binding site [chemical binding]; other site 279238009351 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 279238009352 putative allosteric regulatory site; other site 279238009353 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 279238009354 putative allosteric regulatory residue; other site 279238009355 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 279238009356 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 279238009357 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 279238009358 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 279238009359 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 279238009360 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 279238009361 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 279238009362 FMN binding site [chemical binding]; other site 279238009363 substrate binding site [chemical binding]; other site 279238009364 putative catalytic residue [active] 279238009365 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238009366 Major Facilitator Superfamily; Region: MFS_1; pfam07690 279238009367 putative substrate translocation pore; other site 279238009368 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 279238009369 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 279238009370 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 279238009371 active site 279238009372 hypothetical protein; Provisional; Region: PRK09133 279238009373 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 279238009374 putative metal binding site [ion binding]; other site 279238009375 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 279238009376 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 279238009377 Mg2+ binding site [ion binding]; other site 279238009378 G-X-G motif; other site 279238009379 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 279238009380 anchoring element; other site 279238009381 dimer interface [polypeptide binding]; other site 279238009382 ATP binding site [chemical binding]; other site 279238009383 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 279238009384 active site 279238009385 putative metal-binding site [ion binding]; other site 279238009386 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 279238009387 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 279238009388 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 279238009389 ATP binding site [chemical binding]; other site 279238009390 putative Mg++ binding site [ion binding]; other site 279238009391 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 279238009392 nucleotide binding region [chemical binding]; other site 279238009393 ATP-binding site [chemical binding]; other site 279238009394 DEAD/H associated; Region: DEAD_assoc; pfam08494 279238009395 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 279238009396 Nucleotide-binding domain of Escherichia coli HscC and similar proteins; Region: HscC_like_NBD; cd10235 279238009397 nucleotide binding site [chemical binding]; other site 279238009398 putative NEF/HSP70 interaction site [polypeptide binding]; other site 279238009399 SBD interface [polypeptide binding]; other site 279238009400 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 279238009401 BON domain; Region: BON; pfam04972 279238009402 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 279238009403 active site 279238009404 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 279238009405 substrate binding site [chemical binding]; other site 279238009406 metal binding site [ion binding]; metal-binding site 279238009407 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 279238009408 HSP70 interaction site [polypeptide binding]; other site 279238009409 ATPase MipZ; Region: MipZ; pfam09140 279238009410 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 279238009411 P-loop; other site 279238009412 Magnesium ion binding site [ion binding]; other site 279238009413 Pantoate-beta-alanine ligase; Region: PanC; cd00560 279238009414 pantoate--beta-alanine ligase; Region: panC; TIGR00018 279238009415 active site 279238009416 ATP-binding site [chemical binding]; other site 279238009417 pantoate-binding site; other site 279238009418 HXXH motif; other site 279238009419 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 279238009420 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 279238009421 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 279238009422 putative active site [active] 279238009423 putative metal binding site [ion binding]; other site 279238009424 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 279238009425 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl17465 279238009426 Predicted transcriptional regulators [Transcription]; Region: COG1733 279238009427 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 279238009428 dimerization interface [polypeptide binding]; other site 279238009429 putative DNA binding site [nucleotide binding]; other site 279238009430 putative Zn2+ binding site [ion binding]; other site 279238009431 methionine sulfoxide reductase B; Provisional; Region: PRK00222 279238009432 SelR domain; Region: SelR; pfam01641 279238009433 Transglycosylase; Region: Transgly; pfam00912 279238009434 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 279238009435 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 279238009436 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 279238009437 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 279238009438 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 279238009439 protein binding site [polypeptide binding]; other site 279238009440 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 279238009441 protein binding site [polypeptide binding]; other site 279238009442 HflC protein; Region: hflC; TIGR01932 279238009443 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 279238009444 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 279238009445 HflK protein; Region: hflK; TIGR01933 279238009446 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 279238009447 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 279238009448 Walker A motif; other site 279238009449 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 279238009450 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 279238009451 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 279238009452 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 279238009453 ferrochelatase; Reviewed; Region: hemH; PRK00035 279238009454 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 279238009455 active site 279238009456 C-terminal domain interface [polypeptide binding]; other site 279238009457 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 279238009458 active site 279238009459 N-terminal domain interface [polypeptide binding]; other site 279238009460 Cytochrome P450; Region: p450; cl12078 279238009461 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 279238009462 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 279238009463 active site 279238009464 Amidohydrolase; Region: Amidohydro_2; pfam04909 279238009465 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 279238009466 inter-subunit interface; other site 279238009467 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 279238009468 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 279238009469 [2Fe-2S] cluster binding site [ion binding]; other site 279238009470 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 279238009471 hydrophobic ligand binding site; other site 279238009472 Trans-o-hydroxybenzylidenepyruvate hydratase-aldolase (HBPHA) and trans-2'-carboxybenzalpyruvate hydratase-aldolase (CBPHA); Region: CHBPH_aldolase; cd00952 279238009473 putative active site [active] 279238009474 catalytic residue [active] 279238009475 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 279238009476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238009477 NAD(P) binding site [chemical binding]; other site 279238009478 active site 279238009479 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 279238009480 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 279238009481 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 279238009482 Activator of aromatic catabolism; Region: XylR_N; pfam06505 279238009483 V4R domain; Region: V4R; pfam02830 279238009484 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 279238009485 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 279238009486 Walker A motif; other site 279238009487 ATP binding site [chemical binding]; other site 279238009488 Walker B motif; other site 279238009489 arginine finger; other site 279238009490 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 279238009491 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 279238009492 iron-sulfur cluster [ion binding]; other site 279238009493 [2Fe-2S] cluster binding site [ion binding]; other site 279238009494 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 279238009495 beta subunit interface [polypeptide binding]; other site 279238009496 alpha subunit interface [polypeptide binding]; other site 279238009497 active site 279238009498 substrate binding site [chemical binding]; other site 279238009499 Fe binding site [ion binding]; other site 279238009500 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 279238009501 inter-subunit interface; other site 279238009502 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 279238009503 iron-sulfur cluster [ion binding]; other site 279238009504 [2Fe-2S] cluster binding site [ion binding]; other site 279238009505 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 279238009506 beta subunit interface [polypeptide binding]; other site 279238009507 alpha subunit interface [polypeptide binding]; other site 279238009508 active site 279238009509 substrate binding site [chemical binding]; other site 279238009510 Fe binding site [ion binding]; other site 279238009511 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 279238009512 inter-subunit interface; other site 279238009513 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 279238009514 Di-iron ligands [ion binding]; other site 279238009515 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 279238009516 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 279238009517 catalytic loop [active] 279238009518 iron binding site [ion binding]; other site 279238009519 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S] ferredoxin center (fused to the FAD...; Region: oxygenase_e_transfer_subunit; cd06213 279238009520 FAD binding pocket [chemical binding]; other site 279238009521 FAD binding motif [chemical binding]; other site 279238009522 phosphate binding motif [ion binding]; other site 279238009523 beta-alpha-beta structure motif; other site 279238009524 NAD binding pocket [chemical binding]; other site 279238009525 2,3-dihydroxy-2,3-dihydrophenylpropionate dehydrogenase; Provisional; Region: PRK06200 279238009526 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238009527 NAD(P) binding site [chemical binding]; other site 279238009528 active site 279238009529 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 279238009530 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 279238009531 NAD(P) binding site [chemical binding]; other site 279238009532 catalytic residues [active] 279238009533 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 279238009534 catalytic loop [active] 279238009535 iron binding site [ion binding]; other site 279238009536 Tautomerase enzyme; Region: Tautomerase; pfam01361 279238009537 active site 1 [active] 279238009538 dimer interface [polypeptide binding]; other site 279238009539 hexamer interface [polypeptide binding]; other site 279238009540 active site 2 [active] 279238009541 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 279238009542 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 279238009543 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 279238009544 active site 279238009545 catalytic residues [active] 279238009546 metal binding site [ion binding]; metal-binding site 279238009547 DmpG-like communication domain; Region: DmpG_comm; pfam07836 279238009548 acetaldehyde dehydrogenase; Validated; Region: PRK08300 279238009549 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 279238009550 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 279238009551 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 279238009552 2-hydroxymuconic semialdehyde dehydrogenase; Region: OH_muco_semi_DH; TIGR03216 279238009553 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 279238009554 NAD binding site [chemical binding]; other site 279238009555 catalytic residues [active] 279238009556 Domain of unknown function (DUF336); Region: DUF336; pfam03928 279238009557 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 279238009558 N-terminal domain of catechol 2,3-dioxygenase; Region: 2_3_CTD_N; cd07265 279238009559 tetramer interface [polypeptide binding]; other site 279238009560 C-terminal domain of catechol 2,3-dioxygenase; Region: 2_3_CTD_C; cd07243 279238009561 tetramer interface [polypeptide binding]; other site 279238009562 active site 279238009563 Fe binding site [ion binding]; other site 279238009564 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 279238009565 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 279238009566 glutathionine S-transferase; Provisional; Region: PRK10542 279238009567 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 279238009568 C-terminal domain interface [polypeptide binding]; other site 279238009569 GSH binding site (G-site) [chemical binding]; other site 279238009570 dimer interface [polypeptide binding]; other site 279238009571 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 279238009572 dimer interface [polypeptide binding]; other site 279238009573 N-terminal domain interface [polypeptide binding]; other site 279238009574 substrate binding pocket (H-site) [chemical binding]; other site 279238009575 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 279238009576 inter-subunit interface; other site 279238009577 Rieske non-heme iron oxygenase (RO) family, Ortho-halobenzoate-1,2-dioxygenase (OHBDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of OHBDO, salicylate 5-hydroxylase (S5H); Region: Rieske_RO_Alpha_OHBDO_like; cd03545 279238009578 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 279238009579 putative alpha subunit interface [polypeptide binding]; other site 279238009580 putative active site [active] 279238009581 putative substrate binding site [chemical binding]; other site 279238009582 Fe binding site [ion binding]; other site 279238009583 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 279238009584 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; pfam04166 279238009585 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 279238009586 inter-subunit interface; other site 279238009587 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 279238009588 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 279238009589 iron-sulfur cluster [ion binding]; other site 279238009590 [2Fe-2S] cluster binding site [ion binding]; other site 279238009591 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 279238009592 putative alpha subunit interface [polypeptide binding]; other site 279238009593 putative active site [active] 279238009594 putative substrate binding site [chemical binding]; other site 279238009595 Fe binding site [ion binding]; other site 279238009596 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 279238009597 N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_N_like; cd07252 279238009598 C-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_C_like; cd07237 279238009599 active site 279238009600 Fe binding site [ion binding]; other site 279238009601 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 279238009602 [2Fe-2S] cluster binding site [ion binding]; other site 279238009603 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 279238009604 inter-subunit interface; other site 279238009605 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 279238009606 Rieske non-heme iron oxygenase (RO) family, Ortho-halobenzoate-1,2-dioxygenase (OHBDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of OHBDO, salicylate 5-hydroxylase (S5H); Region: Rieske_RO_Alpha_OHBDO_like; cd03545 279238009607 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 279238009608 putative alpha subunit interface [polypeptide binding]; other site 279238009609 putative active site [active] 279238009610 putative substrate binding site [chemical binding]; other site 279238009611 Fe binding site [ion binding]; other site 279238009612 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 279238009613 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 279238009614 putative catalytic residue [active] 279238009615 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 279238009616 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 279238009617 N-terminal plug; other site 279238009618 ligand-binding site [chemical binding]; other site 279238009619 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238009620 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 279238009621 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 279238009622 succinic semialdehyde dehydrogenase; Region: PLN02278 279238009623 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 279238009624 tetramerization interface [polypeptide binding]; other site 279238009625 NAD(P) binding site [chemical binding]; other site 279238009626 catalytic residues [active] 279238009627 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 279238009628 Flavoprotein; Region: Flavoprotein; pfam02441 279238009629 FAD binding domain; Region: FAD_binding_4; pfam01565 279238009630 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 279238009631 Pseudomonas putida vanillin dehydrogenase-like; Region: ALDH_VaniDH_like; cd07150 279238009632 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 279238009633 NAD(P) binding site [chemical binding]; other site 279238009634 catalytic residues [active] 279238009635 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 279238009636 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 279238009637 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 279238009638 FAD binding domain; Region: FAD_binding_4; pfam01565 279238009639 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 279238009640 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 279238009641 TIGR02444 family protein; Region: TIGR02444 279238009642 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 279238009643 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 279238009644 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 279238009645 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 279238009646 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 279238009647 CoA-transferase family III; Region: CoA_transf_3; pfam02515 279238009648 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238009649 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 279238009650 putative substrate translocation pore; other site 279238009651 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 279238009652 Transcriptional regulator [Transcription]; Region: IclR; COG1414 279238009653 Bacterial transcriptional regulator; Region: IclR; pfam01614 279238009654 Beta-carotene hydroxylase (CrtR), the carotenoid zeaxanthin biosynthetic enzyme catalyzes the addition of hydroxyl groups to the beta-ionone rings of beta-carotene to form zeaxanthin and is found in bacteria and red algae. Carotenoids are important...; Region: CrtR_beta-carotene-hydroxylase; cd03514 279238009655 Fatty acid desaturase; Region: FA_desaturase; pfam00487 279238009656 putative di-iron ligands [ion binding]; other site 279238009657 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 279238009658 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 279238009659 active site 279238009660 non-prolyl cis peptide bond; other site 279238009661 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 279238009662 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 279238009663 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 279238009664 BphX-like; Region: BphX; pfam06139 279238009665 Protein of unknown function (DUF1330); Region: DUF1330; pfam07045 279238009666 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 279238009667 tartrate dehydrogenase; Region: TTC; TIGR02089 279238009668 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 279238009669 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 279238009670 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 279238009671 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 279238009672 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 279238009673 active site 279238009674 inhibitor site; inhibition site 279238009675 dimer interface [polypeptide binding]; other site 279238009676 catalytic residue [active] 279238009677 pyruvate phosphate dikinase; Provisional; Region: PRK09279 279238009678 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 279238009679 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 279238009680 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 279238009681 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 279238009682 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 279238009683 catalytic Zn binding site [ion binding]; other site 279238009684 NAD binding site [chemical binding]; other site 279238009685 structural Zn binding site [ion binding]; other site 279238009686 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 279238009687 inter-subunit interface; other site 279238009688 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 279238009689 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 279238009690 iron-sulfur cluster [ion binding]; other site 279238009691 [2Fe-2S] cluster binding site [ion binding]; other site 279238009692 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 279238009693 beta subunit interface [polypeptide binding]; other site 279238009694 alpha subunit interface [polypeptide binding]; other site 279238009695 active site 279238009696 substrate binding site [chemical binding]; other site 279238009697 Fe binding site [ion binding]; other site 279238009698 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 279238009699 EamA-like transporter family; Region: EamA; pfam00892 279238009700 EamA-like transporter family; Region: EamA; pfam00892 279238009701 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 279238009702 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238009703 putative substrate translocation pore; other site 279238009704 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 279238009705 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 279238009706 HlyD family secretion protein; Region: HlyD_3; pfam13437 279238009707 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 279238009708 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 279238009709 CoenzymeA binding site [chemical binding]; other site 279238009710 subunit interaction site [polypeptide binding]; other site 279238009711 PHB binding site; other site 279238009712 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 279238009713 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 279238009714 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 279238009715 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 279238009716 putative Zn2+ binding site [ion binding]; other site 279238009717 putative DNA binding site [nucleotide binding]; other site 279238009718 dimerization interface [polypeptide binding]; other site 279238009719 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 279238009720 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 279238009721 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279238009722 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 279238009723 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 279238009724 catalytic residues [active] 279238009725 catalytic nucleophile [active] 279238009726 Presynaptic Site I dimer interface [polypeptide binding]; other site 279238009727 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 279238009728 Synaptic Flat tetramer interface [polypeptide binding]; other site 279238009729 Synaptic Site I dimer interface [polypeptide binding]; other site 279238009730 DNA binding site [nucleotide binding] 279238009731 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 279238009732 ParB-like nuclease domain; Region: ParBc; pfam02195 279238009733 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 279238009734 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 279238009735 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 279238009736 DNA binding residues [nucleotide binding] 279238009737 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 279238009738 P-loop; other site 279238009739 Magnesium ion binding site [ion binding]; other site 279238009740 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 279238009741 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 279238009742 Toprim domain; Region: Toprim_3; pfam13362 279238009743 active site 279238009744 metal binding site [ion binding]; metal-binding site 279238009745 Methyltransferase domain; Region: Methyltransf_26; pfam13659 279238009746 P-loop containing NTP hydrolase pore-1; Region: AAA_34; pfam13872 279238009747 Helicase_C-like; Region: Helicase_C_4; pfam13871 279238009748 Fic family protein [Function unknown]; Region: COG3177 279238009749 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 279238009750 Fic/DOC family; Region: Fic; pfam02661 279238009751 PIN domain; Region: PIN_3; pfam13470 279238009752 DNA binding domain, excisionase family; Region: excise; TIGR01764 279238009753 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 279238009754 ParB-like nuclease domain; Region: ParBc; pfam02195 279238009755 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 279238009756 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 279238009757 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 279238009758 putative active site [active] 279238009759 putative NTP binding site [chemical binding]; other site 279238009760 putative nucleic acid binding site [nucleotide binding]; other site 279238009761 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 279238009762 Type II intron maturase; Region: Intron_maturas2; pfam01348 279238009763 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; pfam02899 279238009764 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 279238009765 DNA binding site [nucleotide binding] 279238009766 active site 279238009767 Int/Topo IB signature motif; other site 279238009768 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 279238009769 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 279238009770 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 279238009771 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 279238009772 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 279238009773 putative active site [active] 279238009774 putative NTP binding site [chemical binding]; other site 279238009775 putative nucleic acid binding site [nucleotide binding]; other site 279238009776 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 279238009777 Type II intron maturase; Region: Intron_maturas2; pfam01348 279238009778 Protein of unknown function (DUF3768); Region: DUF3768; pfam12599 279238009779 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; cl00075 279238009780 DGQHR domain; Region: DGQHR; TIGR03187 279238009781 DNA-sulfur modification-associated; Region: DndB; cl17621 279238009782 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 279238009783 DGQHR domain; Region: DGQHR; TIGR03187 279238009784 DNA phosphorothioation-associated DGQHR protein 1; Region: DGQHR_dnd_1; TIGR04172 279238009785 Protein of unknown function (DUF736); Region: DUF736; pfam05284 279238009786 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 279238009787 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 279238009788 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 279238009789 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 279238009790 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 279238009791 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 279238009792 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 279238009793 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 279238009794 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 279238009795 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 279238009796 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 279238009797 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 279238009798 DNA binding residues [nucleotide binding] 279238009799 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 279238009800 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 279238009801 Catalytic site; other site 279238009802 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 279238009803 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 279238009804 dimer interface [polypeptide binding]; other site 279238009805 ssDNA binding site [nucleotide binding]; other site 279238009806 tetramer (dimer of dimers) interface [polypeptide binding]; other site 279238009807 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 279238009808 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 279238009809 active site 279238009810 DNA binding site [nucleotide binding] 279238009811 Int/Topo IB signature motif; other site 279238009812 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 279238009813 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 279238009814 Tn544A and related transposases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal catalytic domain. This CD includes various bacterial transposases similar to TnpA from transposon Tn554; Region: INT_Tn554A_C; cd01194 279238009815 Int/Topo IB signature motif; other site 279238009816 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 279238009817 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 279238009818 putative active site [active] 279238009819 Fic/DOC family; Region: Fic; pfam02661 279238009820 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 279238009821 Bacterial conjugation protein TrwB, ATP binding domain. TrwB is a homohexamer encoded by conjugative plasmids in Gram-negative bacteria. TrwB also has an all alpha domain which has been hypothesized to be responsible for DNA binding. TrwB is a component...; Region: TrwB; cd01127 279238009822 multimer interface [polypeptide binding]; other site 279238009823 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 279238009824 Walker A motif; other site 279238009825 ATP binding site [chemical binding]; other site 279238009826 Walker B motif; other site 279238009827 TrwC relaxase; Region: TrwC; pfam08751 279238009828 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 279238009829 AAA domain; Region: AAA_30; pfam13604 279238009830 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 279238009831 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 279238009832 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 279238009833 Transcriptional regulators [Transcription]; Region: GntR; COG1802 279238009834 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 279238009835 FCD domain; Region: FCD; pfam07729 279238009836 Homeodomain-like domain; Region: HTH_23; pfam13384 279238009837 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 279238009838 Homeodomain-like domain; Region: HTH_32; pfam13565 279238009839 DDE superfamily endonuclease; Region: DDE_3; pfam13358 279238009840 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 279238009841 Conjugative relaxosome accessory transposon protein; Region: TraH; pfam06122 279238009842 TraF-like protein; Region: TraF-like; TIGR02740 279238009843 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 279238009844 Type-1V conjugative transfer system mating pair stabilisation; Region: TraN; pfam06986 279238009845 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; pfam09673 279238009846 TraU protein; Region: TraU; pfam06834 279238009847 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 279238009848 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 279238009849 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 279238009850 Type-F conjugative transfer system protein (TrbI_Ftype); Region: TrbI_Ftype; cl11515 279238009851 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 279238009852 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 279238009853 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; cd01983 279238009854 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 279238009855 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 279238009856 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 279238009857 dimerization domain [polypeptide binding]; other site 279238009858 dimer interface [polypeptide binding]; other site 279238009859 catalytic residues [active] 279238009860 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 279238009861 TraK protein; Region: TraK; pfam06586 279238009862 conjugal transfer protein TraK; Provisional; Region: PRK13736; cl05878 279238009863 TraE protein; Region: TraE; pfam05309 279238009864 TraL protein; Region: TraL; pfam07178 279238009865 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 279238009866 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 279238009867 N-acetyl-D-glucosamine binding site [chemical binding]; other site 279238009868 catalytic residue [active] 279238009869 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 279238009870 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 279238009871 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 279238009872 homotrimer interaction site [polypeptide binding]; other site 279238009873 putative active site [active] 279238009874 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 279238009875 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238009876 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238009877 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238009878 putative substrate translocation pore; other site 279238009879 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238009880 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 279238009881 N-terminal plug; other site 279238009882 ligand-binding site [chemical binding]; other site 279238009883 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 279238009884 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 279238009885 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 279238009886 ligand binding site [chemical binding]; other site 279238009887 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 279238009888 putative deacylase active site [active] 279238009889 transcription elongation factor regulatory protein; Validated; Region: PRK06342 279238009890 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 279238009891 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 279238009892 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 279238009893 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 279238009894 putative active site [active] 279238009895 putative metal binding site [ion binding]; other site 279238009896 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 279238009897 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 279238009898 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 279238009899 active site 279238009900 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 279238009901 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 279238009902 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 279238009903 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 279238009904 active site 279238009905 metal binding site [ion binding]; metal-binding site 279238009906 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 279238009907 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 279238009908 active site 279238009909 metal binding site [ion binding]; metal-binding site 279238009910 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 279238009911 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 279238009912 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 279238009913 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 279238009914 substrate binding pocket [chemical binding]; other site 279238009915 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 279238009916 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 279238009917 active site residue [active] 279238009918 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 279238009919 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 279238009920 FAD binding site [chemical binding]; other site 279238009921 substrate binding pocket [chemical binding]; other site 279238009922 catalytic base [active] 279238009923 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 279238009924 classical (c) SDRs; Region: SDR_c; cd05233 279238009925 NAD(P) binding site [chemical binding]; other site 279238009926 active site 279238009927 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 279238009928 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 279238009929 histidinol dehydrogenase; Region: hisD; TIGR00069 279238009930 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 279238009931 NAD binding site [chemical binding]; other site 279238009932 dimerization interface [polypeptide binding]; other site 279238009933 product binding site; other site 279238009934 substrate binding site [chemical binding]; other site 279238009935 zinc binding site [ion binding]; other site 279238009936 catalytic residues [active] 279238009937 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238009938 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279238009939 NAD(P) binding site [chemical binding]; other site 279238009940 active site 279238009941 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 279238009942 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 279238009943 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 279238009944 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 279238009945 active site 279238009946 metal binding site [ion binding]; metal-binding site 279238009947 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 279238009948 putative active site [active] 279238009949 putative metal binding site [ion binding]; other site 279238009950 hypothetical protein; Provisional; Region: PRK06847 279238009951 hypothetical protein; Provisional; Region: PRK07236 279238009952 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 279238009953 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 279238009954 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 279238009955 active site 279238009956 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 279238009957 putative active site [active] 279238009958 putative metal binding site [ion binding]; other site 279238009959 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 279238009960 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 279238009961 classical (c) SDRs; Region: SDR_c; cd05233 279238009962 NAD(P) binding site [chemical binding]; other site 279238009963 active site 279238009964 Predicted transcriptional regulators [Transcription]; Region: COG1733 279238009965 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 279238009966 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279238009967 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238009968 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 279238009969 dimerization interface [polypeptide binding]; other site 279238009970 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 279238009971 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238009972 NAD(P) binding site [chemical binding]; other site 279238009973 active site 279238009974 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 279238009975 Sulfatase; Region: Sulfatase; pfam00884 279238009976 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238009977 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 279238009978 hypothetical protein; Provisional; Region: PRK06847 279238009979 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 279238009980 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 279238009981 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238009982 NAD(P) binding site [chemical binding]; other site 279238009983 active site 279238009984 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238009985 Major Facilitator Superfamily; Region: MFS_1; pfam07690 279238009986 putative substrate translocation pore; other site 279238009987 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 279238009988 maleylacetoacetate isomerase; Region: maiA; TIGR01262 279238009989 C-terminal domain interface [polypeptide binding]; other site 279238009990 GSH binding site (G-site) [chemical binding]; other site 279238009991 putative dimer interface [polypeptide binding]; other site 279238009992 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 279238009993 substrate binding pocket (H-site) [chemical binding]; other site 279238009994 N-terminal domain interface [polypeptide binding]; other site 279238009995 hypothetical protein; Provisional; Region: PRK08912 279238009996 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 279238009997 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279238009998 homodimer interface [polypeptide binding]; other site 279238009999 catalytic residue [active] 279238010000 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 279238010001 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 279238010002 TrkA-C domain; Region: TrkA_C; pfam02080 279238010003 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 279238010004 TrkA-C domain; Region: TrkA_C; pfam02080 279238010005 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 279238010006 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 279238010007 substrate binding site [chemical binding]; other site 279238010008 oxyanion hole (OAH) forming residues; other site 279238010009 trimer interface [polypeptide binding]; other site 279238010010 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 279238010011 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238010012 NAD(P) binding site [chemical binding]; other site 279238010013 active site 279238010014 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238010015 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238010016 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 279238010017 active site 279238010018 thioredoxin 2; Provisional; Region: PRK10996 279238010019 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 279238010020 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 279238010021 catalytic residues [active] 279238010022 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 279238010023 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 279238010024 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 279238010025 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 279238010026 motif II; other site 279238010027 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 279238010028 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238010029 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 279238010030 N-terminal plug; other site 279238010031 ligand-binding site [chemical binding]; other site 279238010032 MarR family; Region: MarR_2; pfam12802 279238010033 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 279238010034 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 279238010035 NADP binding site [chemical binding]; other site 279238010036 dimer interface [polypeptide binding]; other site 279238010037 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 279238010038 enoyl-CoA hydratase; Provisional; Region: PRK06127 279238010039 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 279238010040 substrate binding site [chemical binding]; other site 279238010041 oxyanion hole (OAH) forming residues; other site 279238010042 trimer interface [polypeptide binding]; other site 279238010043 SnoaL-like domain; Region: SnoaL_2; pfam12680 279238010044 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 279238010045 Prostaglandin dehydrogenases; Region: PGDH; cd05288 279238010046 NAD(P) binding site [chemical binding]; other site 279238010047 substrate binding site [chemical binding]; other site 279238010048 dimer interface [polypeptide binding]; other site 279238010049 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238010050 short chain dehydrogenase; Validated; Region: PRK07069 279238010051 NAD(P) binding site [chemical binding]; other site 279238010052 active site 279238010053 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 279238010054 iron-sulfur cluster [ion binding]; other site 279238010055 [2Fe-2S] cluster binding site [ion binding]; other site 279238010056 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 279238010057 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 279238010058 putative NAD(P) binding site [chemical binding]; other site 279238010059 putative substrate binding site [chemical binding]; other site 279238010060 catalytic Zn binding site [ion binding]; other site 279238010061 structural Zn binding site [ion binding]; other site 279238010062 SnoaL-like domain; Region: SnoaL_4; pfam13577 279238010063 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 279238010064 arsenical-resistance protein; Region: acr3; TIGR00832 279238010065 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 279238010066 Low molecular weight phosphatase family; Region: LMWPc; cl00105 279238010067 active site 279238010068 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_20; cd07254 279238010069 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 279238010070 putative metal binding site [ion binding]; other site 279238010071 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 279238010072 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238010073 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 279238010074 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 279238010075 Prostaglandin dehydrogenases; Region: PGDH; cd05288 279238010076 NAD(P) binding site [chemical binding]; other site 279238010077 substrate binding site [chemical binding]; other site 279238010078 dimer interface [polypeptide binding]; other site 279238010079 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 279238010080 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238010081 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279238010082 NAD(P) binding site [chemical binding]; other site 279238010083 active site 279238010084 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238010085 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 279238010086 N-terminal plug; other site 279238010087 ligand-binding site [chemical binding]; other site 279238010088 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 279238010089 Prostaglandin dehydrogenases; Region: PGDH; cd05288 279238010090 NAD(P) binding site [chemical binding]; other site 279238010091 substrate binding site [chemical binding]; other site 279238010092 dimer interface [polypeptide binding]; other site 279238010093 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279238010094 classical (c) SDRs; Region: SDR_c; cd05233 279238010095 NAD(P) binding site [chemical binding]; other site 279238010096 active site 279238010097 Activator of aromatic catabolism; Region: XylR_N; pfam06505 279238010098 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 279238010099 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 279238010100 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 279238010101 Walker A motif; other site 279238010102 ATP binding site [chemical binding]; other site 279238010103 Walker B motif; other site 279238010104 arginine finger; other site 279238010105 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 279238010106 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 279238010107 FAD binding domain; Region: FAD_binding_4; pfam01565 279238010108 Cytochrome c; Region: Cytochrom_C; cl11414 279238010109 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 279238010110 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 279238010111 NAD(P) binding site [chemical binding]; other site 279238010112 catalytic residues [active] 279238010113 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 279238010114 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 279238010115 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 279238010116 [2Fe-2S] cluster binding site [ion binding]; other site 279238010117 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_3; cd08887 279238010118 putative alpha subunit interface [polypeptide binding]; other site 279238010119 putative active site [active] 279238010120 putative substrate binding site [chemical binding]; other site 279238010121 Fe binding site [ion binding]; other site 279238010122 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 279238010123 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 279238010124 [2Fe-2S] cluster binding site [ion binding]; other site 279238010125 C-terminal catalytic domain of Pseudomonas fluorescens MupW and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_MupW-like; cd08882 279238010126 putative alpha subunit interface [polypeptide binding]; other site 279238010127 putative active site [active] 279238010128 putative substrate binding site [chemical binding]; other site 279238010129 Fe binding site [ion binding]; other site 279238010130 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 279238010131 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 279238010132 active site 279238010133 metal binding site [ion binding]; metal-binding site 279238010134 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 279238010135 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238010136 NAD(P) binding site [chemical binding]; other site 279238010137 active site 279238010138 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 279238010139 classical (c) SDRs; Region: SDR_c; cd05233 279238010140 NAD(P) binding site [chemical binding]; other site 279238010141 active site 279238010142 hypothetical protein; Validated; Region: PRK07121 279238010143 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 279238010144 cyclohexanecarboxylate-CoA ligase; Reviewed; Region: PRK13295 279238010145 Cyclohexanecarboxylate-CoA ligase (also called cyclohex-1-ene-1-carboxylate:CoA ligase); Region: CHC_CoA_lg; cd05903 279238010146 acyl-activating enzyme (AAE) consensus motif; other site 279238010147 putative AMP binding site [chemical binding]; other site 279238010148 putative active site [active] 279238010149 putative CoA binding site [chemical binding]; other site 279238010150 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 279238010151 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 279238010152 [2Fe-2S] cluster binding site [ion binding]; other site 279238010153 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_3; cd08887 279238010154 putative alpha subunit interface [polypeptide binding]; other site 279238010155 putative active site [active] 279238010156 putative substrate binding site [chemical binding]; other site 279238010157 Fe binding site [ion binding]; other site 279238010158 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 279238010159 EthD domain; Region: EthD; pfam07110 279238010160 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 279238010161 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 279238010162 dimerization interface [polypeptide binding]; other site 279238010163 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 279238010164 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 279238010165 dimerization interface [polypeptide binding]; other site 279238010166 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 279238010167 dimerization interface [polypeptide binding]; other site 279238010168 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 279238010169 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 279238010170 dimerization interface [polypeptide binding]; other site 279238010171 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 279238010172 dimerization interface [polypeptide binding]; other site 279238010173 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 279238010174 dimerization interface [polypeptide binding]; other site 279238010175 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 279238010176 dimerization interface [polypeptide binding]; other site 279238010177 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 279238010178 dimerization interface [polypeptide binding]; other site 279238010179 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 279238010180 dimerization interface [polypeptide binding]; other site 279238010181 GAF domain; Region: GAF_2; pfam13185 279238010182 GAF domain; Region: GAF_3; pfam13492 279238010183 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 279238010184 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 279238010185 dimer interface [polypeptide binding]; other site 279238010186 phosphorylation site [posttranslational modification] 279238010187 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 279238010188 ATP binding site [chemical binding]; other site 279238010189 Mg2+ binding site [ion binding]; other site 279238010190 G-X-G motif; other site 279238010191 Response regulator receiver domain; Region: Response_reg; pfam00072 279238010192 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 279238010193 active site 279238010194 phosphorylation site [posttranslational modification] 279238010195 intermolecular recognition site; other site 279238010196 dimerization interface [polypeptide binding]; other site 279238010197 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 279238010198 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 279238010199 active site 279238010200 phosphorylation site [posttranslational modification] 279238010201 intermolecular recognition site; other site 279238010202 dimerization interface [polypeptide binding]; other site 279238010203 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 279238010204 active site 279238010205 phosphorylation site [posttranslational modification] 279238010206 intermolecular recognition site; other site 279238010207 dimerization interface [polypeptide binding]; other site 279238010208 PAS fold; Region: PAS_3; pfam08447 279238010209 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 279238010210 dimer interface [polypeptide binding]; other site 279238010211 phosphorylation site [posttranslational modification] 279238010212 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 279238010213 ATP binding site [chemical binding]; other site 279238010214 Mg2+ binding site [ion binding]; other site 279238010215 G-X-G motif; other site 279238010216 Response regulator receiver domain; Region: Response_reg; pfam00072 279238010217 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 279238010218 active site 279238010219 phosphorylation site [posttranslational modification] 279238010220 intermolecular recognition site; other site 279238010221 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 279238010222 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 279238010223 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 279238010224 HlyD family secretion protein; Region: HlyD_3; pfam13437 279238010225 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 279238010226 Fusaric acid resistance protein family; Region: FUSC; pfam04632 279238010227 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 279238010228 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279238010229 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238010230 LysR substrate binding domain; Region: LysR_substrate; pfam03466 279238010231 methionine gamma-lyase; Validated; Region: PRK07049 279238010232 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 279238010233 homodimer interface [polypeptide binding]; other site 279238010234 substrate-cofactor binding pocket; other site 279238010235 pyridoxal 5'-phosphate binding site [chemical binding]; other site 279238010236 catalytic residue [active] 279238010237 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 279238010238 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 279238010239 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 279238010240 motif II; other site 279238010241 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 279238010242 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 279238010243 [2Fe-2S] cluster binding site [ion binding]; other site 279238010244 C-terminal catalytic domain of Pseudomonas fluorescens MupW and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_MupW-like; cd08882 279238010245 putative alpha subunit interface [polypeptide binding]; other site 279238010246 putative active site [active] 279238010247 putative substrate binding site [chemical binding]; other site 279238010248 Fe binding site [ion binding]; other site 279238010249 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238010250 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279238010251 NAD(P) binding site [chemical binding]; other site 279238010252 active site 279238010253 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238010254 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 279238010255 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238010256 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238010257 D-galactonate transporter; Region: 2A0114; TIGR00893 279238010258 putative substrate translocation pore; other site 279238010259 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 279238010260 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 279238010261 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 279238010262 Transcriptional regulators [Transcription]; Region: PurR; COG1609 279238010263 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 279238010264 DNA binding site [nucleotide binding] 279238010265 domain linker motif; other site 279238010266 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 279238010267 putative dimerization interface [polypeptide binding]; other site 279238010268 putative ligand binding site [chemical binding]; other site 279238010269 hypothetical protein; Provisional; Region: PRK09273 279238010270 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 279238010271 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 279238010272 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 279238010273 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 279238010274 NADP binding site [chemical binding]; other site 279238010275 homodimer interface [polypeptide binding]; other site 279238010276 active site 279238010277 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 279238010278 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 279238010279 substrate binding site [chemical binding]; other site 279238010280 ATP binding site [chemical binding]; other site 279238010281 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 279238010282 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 279238010283 substrate binding pocket [chemical binding]; other site 279238010284 catalytic triad [active] 279238010285 Pectate lyase; Region: Pec_lyase_C; cl01593 279238010286 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 279238010287 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 279238010288 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 279238010289 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 279238010290 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 279238010291 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 279238010292 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 279238010293 active site 279238010294 glucuronate isomerase; Reviewed; Region: PRK02925 279238010295 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 279238010296 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 279238010297 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 279238010298 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 279238010299 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238010300 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 279238010301 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 279238010302 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 279238010303 SnoaL-like domain; Region: SnoaL_4; pfam13577 279238010304 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238010305 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 279238010306 NAD(P) binding site [chemical binding]; other site 279238010307 active site 279238010308 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238010309 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238010310 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238010311 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 279238010312 N-terminal plug; other site 279238010313 ligand-binding site [chemical binding]; other site 279238010314 SnoaL-like domain; Region: SnoaL_4; pfam13577 279238010315 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; cd00531 279238010316 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238010317 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279238010318 NAD(P) binding site [chemical binding]; other site 279238010319 active site 279238010320 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 279238010321 Cytochrome P450; Region: p450; cl12078 279238010322 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 279238010323 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 279238010324 [2Fe-2S] cluster binding site [ion binding]; other site 279238010325 C-terminal catalytic domain of Pseudomonas fluorescens MupW and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_MupW-like; cd08882 279238010326 putative alpha subunit interface [polypeptide binding]; other site 279238010327 putative active site [active] 279238010328 putative substrate binding site [chemical binding]; other site 279238010329 Fe binding site [ion binding]; other site 279238010330 SnoaL-like domain; Region: SnoaL_4; pfam13577 279238010331 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 279238010332 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 279238010333 [2Fe-2S] cluster binding site [ion binding]; other site 279238010334 C-terminal catalytic domain of Pseudomonas fluorescens MupW and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_MupW-like; cd08882 279238010335 putative alpha subunit interface [polypeptide binding]; other site 279238010336 putative active site [active] 279238010337 putative substrate binding site [chemical binding]; other site 279238010338 Fe binding site [ion binding]; other site 279238010339 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 279238010340 dimer interface [polypeptide binding]; other site 279238010341 substrate binding site [chemical binding]; other site 279238010342 metal binding site [ion binding]; metal-binding site 279238010343 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; cd00531 279238010344 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 279238010345 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 279238010346 [2Fe-2S] cluster binding site [ion binding]; other site 279238010347 C-terminal catalytic domain of Pseudomonas fluorescens MupW and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_MupW-like; cd08882 279238010348 putative alpha subunit interface [polypeptide binding]; other site 279238010349 putative active site [active] 279238010350 putative substrate binding site [chemical binding]; other site 279238010351 Fe binding site [ion binding]; other site 279238010352 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 279238010353 Predicted oxidoreductase [General function prediction only]; Region: COG3573 279238010354 putative bifunctional cbb3-type cytochrome c oxidase subunit II/cytochrome c; Provisional; Region: PRK14486 279238010355 classical (c) SDRs; Region: SDR_c; cd05233 279238010356 NAD(P) binding site [chemical binding]; other site 279238010357 active site 279238010358 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 279238010359 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238010360 NAD(P) binding site [chemical binding]; other site 279238010361 active site 279238010362 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238010363 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 279238010364 NAD(P) binding site [chemical binding]; other site 279238010365 active site 279238010366 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 279238010367 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238010368 NAD(P) binding site [chemical binding]; other site 279238010369 active site 279238010370 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 279238010371 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 279238010372 [2Fe-2S] cluster binding site [ion binding]; other site 279238010373 C-terminal catalytic domain of Pseudomonas fluorescens MupW and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_MupW-like; cd08882 279238010374 putative alpha subunit interface [polypeptide binding]; other site 279238010375 putative active site [active] 279238010376 putative substrate binding site [chemical binding]; other site 279238010377 Fe binding site [ion binding]; other site 279238010378 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 279238010379 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 279238010380 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 279238010381 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 279238010382 active site 279238010383 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 279238010384 DNA binding residues [nucleotide binding] 279238010385 dimerization interface [polypeptide binding]; other site 279238010386 polyhydroxyalkanoic acid synthase, PhaR subunit; Region: phaR_Bmeg; TIGR02132 279238010387 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 279238010388 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 279238010389 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 279238010390 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 279238010391 Coenzyme A binding pocket [chemical binding]; other site 279238010392 PGAP1-like protein; Region: PGAP1; pfam07819 279238010393 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 279238010394 choline dehydrogenase; Validated; Region: PRK02106 279238010395 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 279238010396 active site 279238010397 AMP binding site [chemical binding]; other site 279238010398 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 279238010399 DUF35 OB-fold domain; Region: DUF35; pfam01796 279238010400 lipid-transfer protein; Provisional; Region: PRK08256 279238010401 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 279238010402 active site 279238010403 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 279238010404 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 279238010405 active site 279238010406 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 279238010407 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 279238010408 tetramer interface [polypeptide binding]; other site 279238010409 TPP-binding site [chemical binding]; other site 279238010410 heterodimer interface [polypeptide binding]; other site 279238010411 phosphorylation loop region [posttranslational modification] 279238010412 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 279238010413 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 279238010414 alpha subunit interface [polypeptide binding]; other site 279238010415 TPP binding site [chemical binding]; other site 279238010416 heterodimer interface [polypeptide binding]; other site 279238010417 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 279238010418 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 279238010419 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 279238010420 E3 interaction surface; other site 279238010421 lipoyl attachment site [posttranslational modification]; other site 279238010422 e3 binding domain; Region: E3_binding; pfam02817 279238010423 e3 binding domain; Region: E3_binding; pfam02817 279238010424 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 279238010425 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 279238010426 active site 279238010427 metal binding site [ion binding]; metal-binding site 279238010428 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238010429 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 279238010430 N-terminal plug; other site 279238010431 ligand-binding site [chemical binding]; other site 279238010432 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 279238010433 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 279238010434 heme binding pocket [chemical binding]; other site 279238010435 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 279238010436 domain interactions; other site 279238010437 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 279238010438 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 279238010439 MFS/sugar transport protein; Region: MFS_2; pfam13347 279238010440 Trehalose utilisation; Region: ThuA; pfam06283 279238010441 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 279238010442 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 279238010443 Carboxylesterase family; Region: COesterase; pfam00135 279238010444 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 279238010445 substrate binding pocket [chemical binding]; other site 279238010446 catalytic triad [active] 279238010447 SnoaL-like domain; Region: SnoaL_4; pfam13577 279238010448 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 279238010449 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 279238010450 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 279238010451 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 279238010452 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 279238010453 Metal-binding active site; metal-binding site 279238010454 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 279238010455 choline dehydrogenase; Validated; Region: PRK02106 279238010456 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 279238010457 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238010458 WHG domain; Region: WHG; pfam13305 279238010459 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 279238010460 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 279238010461 thymidine phosphorylase; Provisional; Region: PRK04350 279238010462 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 279238010463 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 279238010464 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 279238010465 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK00934 279238010466 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 279238010467 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 279238010468 active site 279238010469 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 279238010470 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 279238010471 Walker A/P-loop; other site 279238010472 ATP binding site [chemical binding]; other site 279238010473 Q-loop/lid; other site 279238010474 ABC transporter signature motif; other site 279238010475 Walker B; other site 279238010476 D-loop; other site 279238010477 H-loop/switch region; other site 279238010478 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 279238010479 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 279238010480 HlyD family secretion protein; Region: HlyD_3; pfam13437 279238010481 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 279238010482 putative metal binding site [ion binding]; other site 279238010483 putative homodimer interface [polypeptide binding]; other site 279238010484 putative homotetramer interface [polypeptide binding]; other site 279238010485 putative homodimer-homodimer interface [polypeptide binding]; other site 279238010486 putative allosteric switch controlling residues; other site 279238010487 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 279238010488 Replication initiator protein A; Region: RPA; pfam10134 279238010489 ParB-like nuclease domain; Region: ParBc; pfam02195 279238010490 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 279238010491 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 279238010492 DNA binding residues [nucleotide binding] 279238010493 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 279238010494 P-loop; other site 279238010495 Magnesium ion binding site [ion binding]; other site 279238010496 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 279238010497 Magnesium ion binding site [ion binding]; other site 279238010498 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 279238010499 PAS domain; Region: PAS_9; pfam13426 279238010500 putative active site [active] 279238010501 heme pocket [chemical binding]; other site 279238010502 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 279238010503 PAS domain; Region: PAS_9; pfam13426 279238010504 putative active site [active] 279238010505 heme pocket [chemical binding]; other site 279238010506 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 279238010507 PAS domain; Region: PAS_9; pfam13426 279238010508 putative active site [active] 279238010509 heme pocket [chemical binding]; other site 279238010510 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 279238010511 dimer interface [polypeptide binding]; other site 279238010512 putative CheW interface [polypeptide binding]; other site 279238010513 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 279238010514 CheW-like domain; Region: CheW; pfam01584 279238010515 CheW-like domain; Region: CheW; pfam01584 279238010516 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 279238010517 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 279238010518 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 279238010519 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 279238010520 dimerization interface [polypeptide binding]; other site 279238010521 DNA binding residues [nucleotide binding] 279238010522 ketosteroid isomerase: Many biological reactions proceed by enzymatic cleavage of a C-H bond adjacent to carbonyl or a carboxyl group, leading to an enol or a enolate intermediate that is subsequently re-protonated at the same or an adjacent carbon; Region: ketosteroid_isomerase; cd00781 279238010523 dimer interface [polypeptide binding]; other site 279238010524 active site/substrate binding site [active] 279238010525 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 279238010526 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 279238010527 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 279238010528 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 279238010529 acyl-activating enzyme (AAE) consensus motif; other site 279238010530 acyl-activating enzyme (AAE) consensus motif; other site 279238010531 putative AMP binding site [chemical binding]; other site 279238010532 putative active site [active] 279238010533 putative CoA binding site [chemical binding]; other site 279238010534 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 279238010535 short chain dehydrogenase; Provisional; Region: PRK08278 279238010536 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238010537 NAD(P) binding site [chemical binding]; other site 279238010538 active site 279238010539 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 279238010540 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 279238010541 iron-sulfur cluster [ion binding]; other site 279238010542 [2Fe-2S] cluster binding site [ion binding]; other site 279238010543 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 279238010544 Amidase; Region: Amidase; cl11426 279238010545 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 279238010546 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 279238010547 active site 279238010548 FMN binding site [chemical binding]; other site 279238010549 substrate binding site [chemical binding]; other site 279238010550 putative catalytic residue [active] 279238010551 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 279238010552 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 279238010553 putative DNA binding site [nucleotide binding]; other site 279238010554 putative Zn2+ binding site [ion binding]; other site 279238010555 AsnC family; Region: AsnC_trans_reg; pfam01037 279238010556 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 279238010557 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 279238010558 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 279238010559 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 279238010560 active site 279238010561 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279238010562 classical (c) SDRs; Region: SDR_c; cd05233 279238010563 NAD(P) binding site [chemical binding]; other site 279238010564 active site 279238010565 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 279238010566 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238010567 NAD(P) binding site [chemical binding]; other site 279238010568 active site 279238010569 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279238010570 classical (c) SDRs; Region: SDR_c; cd05233 279238010571 NAD(P) binding site [chemical binding]; other site 279238010572 active site 279238010573 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 279238010574 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 279238010575 FMN binding site [chemical binding]; other site 279238010576 active site 279238010577 substrate binding site [chemical binding]; other site 279238010578 catalytic residue [active] 279238010579 SnoaL-like domain; Region: SnoaL_4; pfam13577 279238010580 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 279238010581 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 279238010582 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 279238010583 AsnC family; Region: AsnC_trans_reg; pfam01037 279238010584 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 279238010585 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 279238010586 putative DNA binding site [nucleotide binding]; other site 279238010587 putative Zn2+ binding site [ion binding]; other site 279238010588 AsnC family; Region: AsnC_trans_reg; pfam01037 279238010589 acetyl esterase; Provisional; Region: PRK10162 279238010590 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 279238010591 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 279238010592 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 279238010593 active site 279238010594 FMN binding site [chemical binding]; other site 279238010595 substrate binding site [chemical binding]; other site 279238010596 putative catalytic residue [active] 279238010597 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 279238010598 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 279238010599 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 279238010600 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 279238010601 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 279238010602 acyl-activating enzyme (AAE) consensus motif; other site 279238010603 putative AMP binding site [chemical binding]; other site 279238010604 putative active site [active] 279238010605 putative CoA binding site [chemical binding]; other site 279238010606 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 279238010607 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 279238010608 active site 279238010609 classical (c) SDRs; Region: SDR_c; cd05233 279238010610 NAD(P) binding site [chemical binding]; other site 279238010611 active site 279238010612 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 279238010613 CoA-transferase family III; Region: CoA_transf_3; pfam02515 279238010614 enoyl-CoA hydratase; Provisional; Region: PRK09245 279238010615 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 279238010616 substrate binding site [chemical binding]; other site 279238010617 oxyanion hole (OAH) forming residues; other site 279238010618 trimer interface [polypeptide binding]; other site 279238010619 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 279238010620 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238010621 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 279238010622 dimerization interface [polypeptide binding]; other site 279238010623 substrate binding pocket [chemical binding]; other site 279238010624 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 279238010625 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 279238010626 active site 279238010627 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 279238010628 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 279238010629 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK07843 279238010630 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 279238010631 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 279238010632 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238010633 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 279238010634 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 279238010635 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 279238010636 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 279238010637 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 279238010638 active site 279238010639 putative substrate binding pocket [chemical binding]; other site 279238010640 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 279238010641 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 279238010642 classical (c) SDRs; Region: SDR_c; cd05233 279238010643 NAD(P) binding site [chemical binding]; other site 279238010644 active site 279238010645 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; cd00531 279238010646 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 279238010647 GTP cyclohydrolase I; Provisional; Region: PLN03044 279238010648 active site 279238010649 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238010650 putative substrate translocation pore; other site 279238010651 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 279238010652 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 279238010653 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 279238010654 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279238010655 classical (c) SDRs; Region: SDR_c; cd05233 279238010656 NAD(P) binding site [chemical binding]; other site 279238010657 active site 279238010658 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 279238010659 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 279238010660 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 279238010661 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 279238010662 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 279238010663 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 279238010664 NAD(P) binding site [chemical binding]; other site 279238010665 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238010666 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238010667 SnoaL-like domain; Region: SnoaL_4; pfam13577 279238010668 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 279238010669 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 279238010670 active site 279238010671 putative substrate binding pocket [chemical binding]; other site 279238010672 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 279238010673 N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_N_like; cd07252 279238010674 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 279238010675 C-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_C_like; cd07237 279238010676 active site 279238010677 Fe binding site [ion binding]; other site 279238010678 Naphthocyclinone hydroxylase; Region: NcnH; cd01159 279238010679 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 279238010680 Flavin binding site [chemical binding]; other site 279238010681 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 279238010682 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 279238010683 iron-sulfur cluster [ion binding]; other site 279238010684 [2Fe-2S] cluster binding site [ion binding]; other site 279238010685 short chain dehydrogenase; Provisional; Region: PRK06172 279238010686 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238010687 NAD(P) binding site [chemical binding]; other site 279238010688 active site 279238010689 choline dehydrogenase; Validated; Region: PRK02106 279238010690 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 279238010691 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]; Region: COG5001 279238010692 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 279238010693 metal binding site [ion binding]; metal-binding site 279238010694 active site 279238010695 I-site; other site 279238010696 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 279238010697 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 279238010698 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 279238010699 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238010700 active site 279238010701 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 279238010702 classical (c) SDRs; Region: SDR_c; cd05233 279238010703 NAD(P) binding site [chemical binding]; other site 279238010704 active site 279238010705 SnoaL-like domain; Region: SnoaL_4; pfam13577 279238010706 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279238010707 classical (c) SDRs; Region: SDR_c; cd05233 279238010708 NAD(P) binding site [chemical binding]; other site 279238010709 active site 279238010710 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 279238010711 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; cl00159 279238010712 catalytic loop [active] 279238010713 iron binding site [ion binding]; other site 279238010714 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 279238010715 Cytochrome P450; Region: p450; cl12078 279238010716 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238010717 short chain dehydrogenase; Provisional; Region: PRK08303 279238010718 NAD(P) binding site [chemical binding]; other site 279238010719 active site 279238010720 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 279238010721 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279238010722 EthD domain; Region: EthD; pfam07110 279238010723 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 279238010724 classical (c) SDRs; Region: SDR_c; cd05233 279238010725 NAD(P) binding site [chemical binding]; other site 279238010726 active site 279238010727 Transcriptional regulator [Transcription]; Region: LysR; COG0583 279238010728 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238010729 LysR substrate binding domain; Region: LysR_substrate; pfam03466 279238010730 dimerization interface [polypeptide binding]; other site 279238010731 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 279238010732 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 279238010733 iron-sulfur cluster [ion binding]; other site 279238010734 [2Fe-2S] cluster binding site [ion binding]; other site 279238010735 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238010736 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279238010737 NAD(P) binding site [chemical binding]; other site 279238010738 active site 279238010739 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238010740 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 279238010741 N-terminal plug; other site 279238010742 ligand-binding site [chemical binding]; other site 279238010743 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 279238010744 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 279238010745 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 279238010746 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 279238010747 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238010748 D-galactonate transporter; Region: 2A0114; TIGR00893 279238010749 putative substrate translocation pore; other site 279238010750 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 279238010751 GIY-YIG motif/motif A; other site 279238010752 putative active site [active] 279238010753 putative metal binding site [ion binding]; other site 279238010754 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 279238010755 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 279238010756 substrate binding site [chemical binding]; other site 279238010757 ATP binding site [chemical binding]; other site 279238010758 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 279238010759 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 279238010760 putative active site pocket [active] 279238010761 putative metal binding site [ion binding]; other site 279238010762 Transcriptional regulators [Transcription]; Region: FadR; COG2186 279238010763 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 279238010764 DNA-binding site [nucleotide binding]; DNA binding site 279238010765 FCD domain; Region: FCD; pfam07729 279238010766 glucuronate isomerase; Reviewed; Region: PRK02925 279238010767 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 279238010768 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 279238010769 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 279238010770 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 279238010771 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 279238010772 Liver alcohol dehydrogenase; Region: liver_alcohol_DH_like; cd08277 279238010773 catalytic Zn binding site [ion binding]; other site 279238010774 NAD binding site [chemical binding]; other site 279238010775 substrate binding site [chemical binding]; other site 279238010776 structural Zn binding site [ion binding]; other site 279238010777 dimer interface [polypeptide binding]; other site 279238010778 choline dehydrogenase; Validated; Region: PRK02106 279238010779 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 279238010780 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 279238010781 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 279238010782 Cytochrome P450; Region: p450; cl12078 279238010783 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 279238010784 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 279238010785 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 279238010786 active site 279238010787 catalytic tetrad [active] 279238010788 hypothetical protein; Validated; Region: PRK07121 279238010789 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 279238010790 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 279238010791 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 279238010792 active site 279238010793 catalytic residues [active] 279238010794 metal binding site [ion binding]; metal-binding site 279238010795 DmpG-like communication domain; Region: DmpG_comm; pfam07836 279238010796 acetaldehyde dehydrogenase; Validated; Region: PRK08300 279238010797 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 279238010798 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 279238010799 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 279238010800 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 279238010801 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 279238010802 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 279238010803 active site 279238010804 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 279238010805 substrate binding site [chemical binding]; other site 279238010806 oxyanion hole (OAH) forming residues; other site 279238010807 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238010808 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238010809 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 279238010810 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 279238010811 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 279238010812 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 279238010813 homotrimer interaction site [polypeptide binding]; other site 279238010814 putative active site [active] 279238010815 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 279238010816 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1; Region: PLPDE_III_DSD_D-TA_like_1; cd06812 279238010817 dimer interface [polypeptide binding]; other site 279238010818 active site 279238010819 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 279238010820 substrate binding site [chemical binding]; other site 279238010821 catalytic residue [active] 279238010822 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 279238010823 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_17; cd08503 279238010824 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 279238010825 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 279238010826 NAD binding site [chemical binding]; other site 279238010827 catalytic residues [active] 279238010828 transcriptional activator TtdR; Provisional; Region: PRK09801 279238010829 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238010830 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 279238010831 putative effector binding pocket; other site 279238010832 putative dimerization interface [polypeptide binding]; other site 279238010833 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238010834 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238010835 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 279238010836 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 279238010837 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 279238010838 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 279238010839 active site 279238010840 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 279238010841 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 279238010842 AsnC family; Region: AsnC_trans_reg; pfam01037 279238010843 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 279238010844 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 279238010845 putative DNA binding site [nucleotide binding]; other site 279238010846 putative Zn2+ binding site [ion binding]; other site 279238010847 AsnC family; Region: AsnC_trans_reg; pfam01037 279238010848 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279238010849 classical (c) SDRs; Region: SDR_c; cd05233 279238010850 NAD(P) binding site [chemical binding]; other site 279238010851 active site 279238010852 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 279238010853 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 279238010854 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238010855 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238010856 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 279238010857 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 279238010858 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238010859 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 279238010860 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238010861 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 279238010862 N-terminal plug; other site 279238010863 ligand-binding site [chemical binding]; other site 279238010864 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; cd00531 279238010865 Uncharacterized conserved protein [Function unknown]; Region: COG2128 279238010866 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 279238010867 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279238010868 classical (c) SDRs; Region: SDR_c; cd05233 279238010869 NAD(P) binding site [chemical binding]; other site 279238010870 active site 279238010871 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 279238010872 classical (c) SDRs; Region: SDR_c; cd05233 279238010873 NAD(P) binding site [chemical binding]; other site 279238010874 active site 279238010875 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 279238010876 classical (c) SDRs; Region: SDR_c; cd05233 279238010877 NAD(P) binding site [chemical binding]; other site 279238010878 active site 279238010879 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238010880 short chain dehydrogenase; Provisional; Region: PRK12828 279238010881 NAD(P) binding site [chemical binding]; other site 279238010882 active site 279238010883 EthD domain; Region: EthD; pfam07110 279238010884 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; cd00531 279238010885 hypothetical protein; Validated; Region: PRK07121 279238010886 Predicted oxidoreductase [General function prediction only]; Region: COG3573 279238010887 SnoaL-like domain; Region: SnoaL_4; pfam13577 279238010888 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 279238010889 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 279238010890 NAD(P) binding site [chemical binding]; other site 279238010891 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238010892 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 279238010893 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279238010894 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238010895 NAD(P) binding site [chemical binding]; other site 279238010896 active site 279238010897 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; cd00531 279238010898 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 279238010899 SnoaL-like domain; Region: SnoaL_2; pfam12680 279238010900 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 279238010901 NADP binding site [chemical binding]; other site 279238010902 active site 279238010903 steroid binding site; other site 279238010904 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK07843 279238010905 L-aspartate oxidase; Provisional; Region: PRK06175 279238010906 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 279238010907 SnoaL-like domain; Region: SnoaL_2; pfam12680 279238010908 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 279238010909 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 279238010910 putative DNA binding site [nucleotide binding]; other site 279238010911 putative Zn2+ binding site [ion binding]; other site 279238010912 AsnC family; Region: AsnC_trans_reg; pfam01037 279238010913 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 279238010914 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 279238010915 AsnC family; Region: AsnC_trans_reg; pfam01037 279238010916 short chain dehydrogenase; Provisional; Region: PRK07890 279238010917 classical (c) SDRs; Region: SDR_c; cd05233 279238010918 NAD(P) binding site [chemical binding]; other site 279238010919 active site 279238010920 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 279238010921 classical (c) SDRs; Region: SDR_c; cd05233 279238010922 NAD(P) binding site [chemical binding]; other site 279238010923 active site 279238010924 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238010925 Major Facilitator Superfamily; Region: MFS_1; pfam07690 279238010926 putative substrate translocation pore; other site 279238010927 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 279238010928 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 279238010929 active site 279238010930 FMN binding site [chemical binding]; other site 279238010931 substrate binding site [chemical binding]; other site 279238010932 putative catalytic residue [active] 279238010933 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 279238010934 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 279238010935 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 279238010936 tetramer interface [polypeptide binding]; other site 279238010937 TPP-binding site [chemical binding]; other site 279238010938 heterodimer interface [polypeptide binding]; other site 279238010939 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 279238010940 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 279238010941 PYR/PP interface [polypeptide binding]; other site 279238010942 dimer interface [polypeptide binding]; other site 279238010943 TPP binding site [chemical binding]; other site 279238010944 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 279238010945 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 279238010946 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 279238010947 E3 interaction surface; other site 279238010948 lipoyl attachment site [posttranslational modification]; other site 279238010949 e3 binding domain; Region: E3_binding; pfam02817 279238010950 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 279238010951 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238010952 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 279238010953 N-terminal plug; other site 279238010954 ligand-binding site [chemical binding]; other site 279238010955 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; cd00531 279238010956 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 279238010957 putative hydrophobic ligand binding site [chemical binding]; other site 279238010958 short chain dehydrogenase; Provisional; Region: PRK07890 279238010959 classical (c) SDRs; Region: SDR_c; cd05233 279238010960 NAD(P) binding site [chemical binding]; other site 279238010961 active site 279238010962 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 279238010963 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 279238010964 active site 279238010965 short chain dehydrogenase; Provisional; Region: PRK07856 279238010966 classical (c) SDRs; Region: SDR_c; cd05233 279238010967 NAD(P) binding site [chemical binding]; other site 279238010968 active site 279238010969 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 279238010970 N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_N_like; cd07252 279238010971 C-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_C_like; cd07237 279238010972 active site 279238010973 Fe binding site [ion binding]; other site 279238010974 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 279238010975 Coenzyme A transferase; Region: CoA_trans; cl17247 279238010976 enoyl-CoA hydratase; Provisional; Region: PRK08290 279238010977 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 279238010978 substrate binding site [chemical binding]; other site 279238010979 oxyanion hole (OAH) forming residues; other site 279238010980 trimer interface [polypeptide binding]; other site 279238010981 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 279238010982 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 279238010983 FMN binding site [chemical binding]; other site 279238010984 substrate binding site [chemical binding]; other site 279238010985 putative catalytic residue [active] 279238010986 enoyl-CoA hydratase; Provisional; Region: PRK06495 279238010987 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 279238010988 substrate binding site [chemical binding]; other site 279238010989 oxyanion hole (OAH) forming residues; other site 279238010990 trimer interface [polypeptide binding]; other site 279238010991 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 279238010992 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 279238010993 FAD binding site [chemical binding]; other site 279238010994 substrate binding site [chemical binding]; other site 279238010995 catalytic base [active] 279238010996 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 279238010997 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 279238010998 active site 279238010999 catalytic triad [active] 279238011000 dimer interface [polypeptide binding]; other site 279238011001 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 279238011002 Acyl-CoA dehydrogenase, C-terminal domain; Region: Acyl-CoA_dh_1; pfam00441 279238011003 active site 279238011004 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 279238011005 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 279238011006 dimer interface [polypeptide binding]; other site 279238011007 active site 279238011008 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; cd00531 279238011009 short chain dehydrogenase; Provisional; Region: PRK07791 279238011010 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 279238011011 homodimer interface [polypeptide binding]; other site 279238011012 NAD binding site [chemical binding]; other site 279238011013 active site 279238011014 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 279238011015 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 279238011016 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 279238011017 active site 279238011018 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 279238011019 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 279238011020 active site 279238011021 short chain dehydrogenase; Provisional; Region: PRK07831 279238011022 classical (c) SDRs; Region: SDR_c; cd05233 279238011023 NAD(P) binding site [chemical binding]; other site 279238011024 active site 279238011025 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 279238011026 putative active site [active] 279238011027 putative catalytic site [active] 279238011028 ketosteroid isomerase: Many biological reactions proceed by enzymatic cleavage of a C-H bond adjacent to carbonyl or a carboxyl group, leading to an enol or a enolate intermediate that is subsequently re-protonated at the same or an adjacent carbon; Region: ketosteroid_isomerase; cd00781 279238011029 dimer interface [polypeptide binding]; other site 279238011030 active site/substrate binding site [active] 279238011031 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 279238011032 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 279238011033 dimer interface [polypeptide binding]; other site 279238011034 active site 279238011035 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 279238011036 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 279238011037 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 279238011038 acyl-activating enzyme (AAE) consensus motif; other site 279238011039 acyl-activating enzyme (AAE) consensus motif; other site 279238011040 putative AMP binding site [chemical binding]; other site 279238011041 putative active site [active] 279238011042 putative CoA binding site [chemical binding]; other site 279238011043 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279238011044 classical (c) SDRs; Region: SDR_c; cd05233 279238011045 NAD(P) binding site [chemical binding]; other site 279238011046 active site 279238011047 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 279238011048 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 279238011049 active site 279238011050 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 279238011051 DNA binding residues [nucleotide binding] 279238011052 dimerization interface [polypeptide binding]; other site 279238011053 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238011054 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 279238011055 N-terminal plug; other site 279238011056 ligand-binding site [chemical binding]; other site 279238011057 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 279238011058 classical (c) SDRs; Region: SDR_c; cd05233 279238011059 NAD(P) binding site [chemical binding]; other site 279238011060 active site 279238011061 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 279238011062 putative active site [active] 279238011063 metal binding site [ion binding]; metal-binding site 279238011064 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 279238011065 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 279238011066 MOFRL family; Region: MOFRL; pfam05161 279238011067 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 279238011068 classical (c) SDRs; Region: SDR_c; cd05233 279238011069 NAD(P) binding site [chemical binding]; other site 279238011070 active site 279238011071 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 279238011072 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238011073 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 279238011074 N-terminal plug; other site 279238011075 ligand-binding site [chemical binding]; other site 279238011076 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 279238011077 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 279238011078 DNA binding residues [nucleotide binding] 279238011079 dimerization interface [polypeptide binding]; other site 279238011080 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 279238011081 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 279238011082 active site 279238011083 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 279238011084 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 279238011085 active site 279238011086 phosphorylation site [posttranslational modification] 279238011087 intermolecular recognition site; other site 279238011088 Cache domain; Region: Cache_1; pfam02743 279238011089 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 279238011090 phosphorylation site [posttranslational modification] 279238011091 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 279238011092 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 279238011093 ATP binding site [chemical binding]; other site 279238011094 Mg2+ binding site [ion binding]; other site 279238011095 G-X-G motif; other site 279238011096 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 279238011097 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 279238011098 dimer interface [polypeptide binding]; other site 279238011099 phosphorylation site [posttranslational modification] 279238011100 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 279238011101 ATP binding site [chemical binding]; other site 279238011102 Mg2+ binding site [ion binding]; other site 279238011103 G-X-G motif; other site 279238011104 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238011105 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 279238011106 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 279238011107 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 279238011108 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 279238011109 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 279238011110 HlyD family secretion protein; Region: HlyD_3; pfam13437 279238011111 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 279238011112 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 279238011113 Walker A/P-loop; other site 279238011114 ATP binding site [chemical binding]; other site 279238011115 Q-loop/lid; other site 279238011116 ABC transporter signature motif; other site 279238011117 Walker B; other site 279238011118 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 279238011119 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 279238011120 active site 279238011121 substrate binding site [chemical binding]; other site 279238011122 metal binding site [ion binding]; metal-binding site 279238011123 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 279238011124 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 279238011125 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 279238011126 homodimer interface [polypeptide binding]; other site 279238011127 NADP binding site [chemical binding]; other site 279238011128 substrate binding site [chemical binding]; other site 279238011129 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 279238011130 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238011131 putative substrate translocation pore; other site 279238011132 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 279238011133 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 279238011134 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 279238011135 HlyD family secretion protein; Region: HlyD_3; pfam13437 279238011136 Transcriptional regulators [Transcription]; Region: MarR; COG1846 279238011137 MarR family; Region: MarR_2; pfam12802 279238011138 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 279238011139 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 279238011140 active site 279238011141 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 279238011142 Uncharacterized conserved protein [Function unknown]; Region: COG3777 279238011143 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 279238011144 active site 2 [active] 279238011145 active site 1 [active] 279238011146 Predicted integral membrane protein [Function unknown]; Region: COG5616 279238011147 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 279238011148 TPR motif; other site 279238011149 binding surface 279238011150 Cytochrome P450; Region: p450; cl12078 279238011151 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 279238011152 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 279238011153 RES domain; Region: RES; smart00953 279238011154 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 279238011155 DNA binding residues [nucleotide binding] 279238011156 dimerization interface [polypeptide binding]; other site 279238011157 Autotransporter beta-domain; Region: Autotransporter; pfam03797 279238011158 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 279238011159 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 279238011160 Tn544A and related transposases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal catalytic domain. This CD includes various bacterial transposases similar to TnpA from transposon Tn554; Region: INT_Tn554A_C; cd01194 279238011161 Int/Topo IB signature motif; other site 279238011162 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 279238011163 active site 279238011164 DNA binding site [nucleotide binding] 279238011165 Int/Topo IB signature motif; other site 279238011166 Flavin Reductases; Region: FlaRed; cl00801 279238011167 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 279238011168 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 279238011169 NAD(P) binding site [chemical binding]; other site 279238011170 active site 279238011171 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 279238011172 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 279238011173 active site 279238011174 SnoaL-like domain; Region: SnoaL_4; pfam13577 279238011175 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 279238011176 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 279238011177 NAD(P) binding site [chemical binding]; other site 279238011178 catalytic residues [active] 279238011179 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 279238011180 Helix-turn-helix domain; Region: HTH_18; pfam12833 279238011181 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 279238011182 inter-subunit interface; other site 279238011183 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 279238011184 [2Fe-2S] cluster binding site [ion binding]; other site 279238011185 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 279238011186 putative alpha subunit interface [polypeptide binding]; other site 279238011187 putative active site [active] 279238011188 putative substrate binding site [chemical binding]; other site 279238011189 Fe binding site [ion binding]; other site 279238011190 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 279238011191 Amidase; Region: Amidase; cl11426 279238011192 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 279238011193 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 279238011194 Cytochrome c; Region: Cytochrom_C; cl11414 279238011195 methylamine dehydrogenase (amicyanin) heavy chain; Region: TTQ_MADH_Hv; TIGR02658 279238011196 Methylamine utilization (mau) D family; mauD protein is the translation product of the mauD gene found in methylotrophic bacteria, which are able to use methylamine as a sole carbon source and a nitrogen source. mauD is an essential accessory protein for...; Region: mauD; cd02967 279238011197 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 279238011198 catalytic residues [active] 279238011199 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 279238011200 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 279238011201 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 279238011202 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 279238011203 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 279238011204 dimer interface [polypeptide binding]; other site 279238011205 active site 279238011206 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 279238011207 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 279238011208 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 279238011209 dimerization interface [polypeptide binding]; other site 279238011210 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 279238011211 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 279238011212 octamer interface [polypeptide binding]; other site 279238011213 active site 279238011214 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 279238011215 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 279238011216 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 279238011217 dimer interface [polypeptide binding]; other site 279238011218 active site 279238011219 Transcriptional regulators [Transcription]; Region: PurR; COG1609 279238011220 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 279238011221 DNA binding site [nucleotide binding] 279238011222 domain linker motif; other site 279238011223 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 279238011224 putative dimerization interface [polypeptide binding]; other site 279238011225 putative ligand binding site [chemical binding]; other site 279238011226 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 279238011227 Cytochrome P450; Region: p450; cl12078