-- dump date 20111121_013834 -- class Genbank::misc_feature -- table misc_feature_note -- id note 291112000002 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 291112000003 DNA binding site 291112000004 Int/Topo IB signature motif; other site 291112000005 active site 291112000006 HMMPfam hit to PF00589, Integrase, catalytic core, phage, score 2.3e-07 291112000007 4 probable transmembrane helices predicted for pPA0004 by TMHMM2.0 at aa 13-35, 67-88, 108-127 and 154-176 291112000008 Colicin pore forming domain; Region: Colicin; pfam01024 291112000009 HMMPfam hit to PF01024, Channel forming colicin, C-terminal cytotoxic, score 3e-60 291112000010 1 probable transmembrane helix predicted for pPA0005 by TMHMM2.0 at aa 387-409 291112000011 ParA-like protein; Provisional; Region: PHA02518 291112000012 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...; Region: ParA; cd02042 291112000013 P-loop; other site 291112000014 Magnesium ion binding site; other site 291112000015 2 probable transmembrane helices predicted for pPA0009 by TMHMM2.0 at aa 53-72 and 79-101 291112000016 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 291112000017 HMMPfam hit to PF08681, Protein of unknown function DUF1778, score 4.2e-26 291112000018 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 291112000019 HMMPfam hit to PF00583, GCN5-related N-acetyltransferase, score 4.7e-05 291112000020 virion protein; Provisional; Region: V; PHA02564 291112000021 1 probable transmembrane helix predicted for pPA0013 by TMHMM2.0 at aa 205-227 291112000022 1 probable transmembrane helix predicted for pPA0017 by TMHMM2.0 at aa 96-118 291112000023 multiple promoter invertase; Provisional; Region: mpi; PRK13413 291112000024 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 291112000025 catalytic residues; other site 291112000026 catalytic nucleophile; other site 291112000027 Presynaptic Site I dimer interface; other site 291112000028 Synaptic Antiparallel dimer interface; other site 291112000029 Synaptic Flat tetramer interface; other site 291112000030 Synaptic Site I dimer interface; other site 291112000031 DNA binding site 291112000032 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; cd00569 291112000033 DNA-binding interface; DNA binding site 291112000034 HMMPfam hit to PF00239, Resolvase, N-terminal, score 1.7e-58 291112000035 KilA-N domain; Region: KilA-N; pfam04383 291112000036 Phage-related protein, tail component [Function unknown]; Region: COG4733 291112000037 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 291112000038 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 291112000039 HMMPfam hit to PF09327, Protein of unknown function DUF1983, score 5e-37 291112000040 HMMPfam hit to PF00041, Fibronectin, type III, score 0.0049 291112000041 Bacteriophage lambda tail assembly protein I; Region: Lambda_tail_I; cl01945 291112000042 HMMPfam hit to PF06805, Bacteriophage lambda tail assembly I, score 5.5e-51 291112000043 2 probable transmembrane helices predicted for pPA0021 by TMHMM2.0 at aa 111-130 and 135-157 291112000044 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 291112000045 MPN+ (JAMM) motif; other site 291112000046 Zinc-binding site; other site 291112000047 NlpC/P60 family; Region: NLPC_P60; cl11438 291112000048 HMMPfam hit to PF00877, NLP/P60, score 1.3e-29 291112000049 Phage minor tail protein L; Region: Phage_tail_L; cl01908 291112000050 HMMPfam hit to PF05100, Phage minor tail protein L, score 2.7e-116 291112000051 Phage minor tail protein; Region: Phage_min_tail; cl01940 291112000052 HMMPfam hit to PF05939, Phage minor tail, score 3.1e-33 291112000053 Mu-like prophage protein [General function prediction only]; Region: COG3941; cl09192 291112000054 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 291112000055 2 probable transmembrane helices predicted for pPA0025 by TMHMM2.0 at aa 499-518 and 590-612 291112000057 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 291112000058 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...; Region: AAA; cd00009 291112000059 Walker A motif; other site 291112000060 ATP binding site; other site 291112000061 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112000062 Walker B motif; other site 291112000063 arginine finger; other site 291112000064 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 291112000065 DnaA box-binding interface; other site 291112000066 DNA polymerase III subunit beta; Validated; Region: PRK05643 291112000067 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...; Region: beta_clamp; cd00140 291112000068 putative DNA binding surface; other site 291112000069 dimer interface; other site 291112000070 beta-clamp/clamp loader binding surface; other site 291112000071 beta-clamp/translesion DNA polymerase binding surface; other site 291112000072 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112000073 Walker A/P-loop; other site 291112000074 ATP binding site; other site 291112000075 Q-loop/lid; other site 291112000076 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112000077 ABC transporter signature motif; other site 291112000078 Walker B; other site 291112000079 D-loop; other site 291112000080 H-loop/switch region; other site 291112000081 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 291112000082 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 291112000083 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 291112000084 anchoring element; other site 291112000085 dimer interface; other site 291112000086 ATP binding site; other site 291112000087 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...; Region: TOPRIM_TopoIIA_GyrB; cd03366 291112000088 active site 291112000089 putative metal-binding site; other site 291112000090 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 291112000091 aspartate-semialdehyde dehydrogenase, gamma-proteobacterial; Region: asd_gamma; TIGR01745 291112000092 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112000093 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 291112000094 Ogr/Delta-like zinc finger; Region: Ogr_Delta; cl04623 291112000095 Phage protein D [General function prediction only]; Region: COG3500; cl12180 291112000096 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 291112000097 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 291112000098 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 291112000099 Phage-related tail protein [Function unknown]; Region: COG5283 291112000100 Phage tail protein E; Region: Phage_E; pfam06158 291112000101 Phage tail tube protein FII; Region: Phage_tube; cl01390 291112000102 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 291112000103 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 291112000104 Phage Tail Collar Domain; Region: Collar; pfam07484 291112000105 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 291112000106 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 291112000107 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 291112000108 Phage Tail Collar Domain; Region: Collar; pfam07484 291112000109 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 291112000110 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 291112000111 Baseplate J-like protein; Region: Baseplate_J; cl01294 291112000112 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 291112000113 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 291112000114 Phage Tail Protein X; Region: Phage_tail_X; cl02088 291112000115 Predicted transcriptional regulator [Transcription]; Region: COG2932 291112000116 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 291112000117 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 291112000118 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 291112000119 catalytic residues; other site 291112000120 catalytic nucleophile; other site 291112000121 Presynaptic Site I dimer interface; other site 291112000122 Synaptic Antiparallel dimer interface; other site 291112000123 Synaptic Flat tetramer interface; other site 291112000124 Synaptic Site I dimer interface; other site 291112000125 DNA binding site 291112000126 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; cd00569 291112000127 DNA-binding interface; DNA binding site 291112000128 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 291112000129 Phage Tail Collar Domain; Region: Collar; pfam07484 291112000130 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 291112000131 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 291112000132 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 291112000133 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 291112000134 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...; Region: GFAT; cd00714 291112000135 glutaminase active site; other site 291112000136 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 291112000137 dimer interface; other site 291112000138 active site 291112000139 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 291112000140 dimer interface; other site 291112000141 active site 291112000142 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 291112000143 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 291112000144 Substrate binding site; other site 291112000145 Mg++ binding site; other site 291112000146 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 291112000147 active site 291112000148 substrate binding site; other site 291112000149 CoA binding site; other site 291112000150 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 291112000151 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 291112000152 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 291112000153 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 291112000154 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 291112000155 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 291112000156 alpha subunit interaction interface; other site 291112000157 Walker A motif; other site 291112000158 ATP binding site; other site 291112000159 Walker B motif; other site 291112000160 inhibitor binding site; inhibition site 291112000161 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 291112000162 ATP synthase; Region: ATP-synt; cl00365 291112000163 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 291112000164 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 291112000165 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 291112000166 beta subunit interaction interface; other site 291112000167 Walker A motif; other site 291112000168 ATP binding site; other site 291112000169 Walker B motif; other site 291112000170 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 291112000171 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl00491 291112000172 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 291112000173 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 291112000174 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 291112000175 ATP synthase subunit C; Region: ATP-synt_C; cl00466 291112000176 ATP synthase A chain; Region: ATP-synt_A; cl00413 291112000177 ATP synthase I chain; Region: ATP_synt_I; cl09170 291112000178 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; cl12011 291112000179 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 291112000180 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 291112000181 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 291112000182 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 291112000183 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112000184 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 291112000185 motif 1; other site 291112000186 dimer interface; other site 291112000187 active site 291112000188 motif 2; other site 291112000189 motif 3; other site 291112000190 hypothetical protein; Provisional; Region: yieM; PRK10997 291112000191 VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-...; Region: VWA_YIEM_type; cd01462 291112000192 metal ion-dependent adhesion site (MIDAS); other site 291112000193 regulatory ATPase RavA; Provisional; Region: PRK13531 291112000194 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...; Region: AAA; cd00009 291112000195 Walker A motif; other site 291112000196 ATP binding site; other site 291112000197 Walker B motif; other site 291112000198 arginine finger; other site 291112000199 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 291112000200 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 291112000201 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 291112000202 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and...; Region: ABC_Carb_Monos_I; cd03216 291112000203 Walker A/P-loop; other site 291112000204 ATP binding site; other site 291112000205 Q-loop/lid; other site 291112000206 ABC transporter signature motif; other site 291112000207 Walker B; other site 291112000208 D-loop; other site 291112000209 H-loop/switch region; other site 291112000210 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (; Region: ABC_Carb_Monos_II; cd03215 291112000211 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 291112000212 TM-ABC transporter signature motif; other site 291112000213 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 291112000214 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 291112000215 ligand binding site; other site 291112000216 dimerization interface; other site 291112000217 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of...; Region: ribokinase; cd01174 291112000218 substrate binding site; other site 291112000219 dimer interface; other site 291112000220 ATP binding site; other site 291112000221 transcriptional repressor RbsR; Provisional; Region: PRK10423 291112000222 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 291112000223 DNA binding site 291112000224 domain linker motif; other site 291112000225 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 291112000226 dimerization interface; other site 291112000227 ligand binding site; other site 291112000228 multidrug efflux system protein MdtE; Provisional; Region: PRK10504 291112000229 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112000230 lipid A phosphoethanolamine transferase; Reviewed; Region: PRK09598 291112000231 Sulfatase; Region: Sulfatase; cl10460 291112000232 Sodium:solute symporter family; Region: SSF; cl00456 291112000233 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 291112000234 Protein of unknown function, DUF485; Region: DUF485; cl01231 291112000235 acetyl-CoA synthetase; Provisional; Region: PRK00174 291112000236 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 291112000237 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112000238 superoxide dismutase; Provisional; Region: PRK10925 291112000239 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 291112000240 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 291112000241 hypothetical protein; Provisional; Region: PRK11536 291112000242 MOSC domain; Region: MOSC; pfam03473 291112000243 3-alpha domain; Region: 3-alpha; pfam03475 291112000244 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 291112000245 active site 291112000246 HIGH motif; other site 291112000247 dimer interface; other site 291112000248 KMSKS motif; other site 291112000249 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 291112000250 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 291112000251 motif II; other site 291112000252 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...; Region: RPE; cd00429 291112000253 substrate binding site; other site 291112000254 hexamer interface; other site 291112000255 metal-binding site 291112000256 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 291112000257 hypothetical protein; Reviewed; Region: PRK11901 291112000258 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 291112000259 active site 291112000260 dimer interface; other site 291112000261 metal-binding site 291112000262 shikimate kinase; Reviewed; Region: aroK; PRK00131 291112000263 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...; Region: SK; cd00464 291112000264 ADP binding site; other site 291112000265 magnesium binding site; other site 291112000266 putative shikimate binding site; other site 291112000267 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 291112000268 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 291112000269 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 291112000270 Cell division protein FtsA; Region: FtsA; cl11496 291112000271 peptidoglycan synthetase; Provisional; Region: mrcA; PRK11636 291112000272 Transglycosylase; Region: Transgly; cl07896 291112000273 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 291112000274 ADP-ribose diphosphatase NudE; Provisional; Region: nudE; PRK11762 291112000275 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...; Region: ADPRase_NUDT5; cd03424 291112000276 dimer interface; other site 291112000277 ADP-ribose binding site; other site 291112000278 active site 291112000279 nudix motif; other site 291112000280 metal-binding site 291112000281 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 291112000282 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 291112000283 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 291112000284 RNA binding surface; other site 291112000285 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 291112000286 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 291112000287 dimerization interface; other site 291112000288 domain crossover interface; other site 291112000289 redox-dependent activation switch; other site 291112000290 phosphoenolpyruvate carboxykinase (ATP); Region: pckA; TIGR00224 291112000291 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 291112000292 active site 291112000293 substrate-binding site; other site 291112000294 metal-binding site 291112000295 ATP binding site; other site 291112000296 Pirin-related protein [General function prediction only]; Region: COG1741 291112000297 Cupin domain; Region: Cupin_2; cl09118 291112000298 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 trans...; Region: HisKA; cd00082 291112000299 dimer interface; other site 291112000300 phosphorylation site 291112000301 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 291112000302 ATP binding site; other site 291112000303 Mg2+ binding site; other site 291112000304 G-X-G motif; other site 291112000305 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 291112000306 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 291112000307 active site 291112000308 phosphorylation site 291112000309 intermolecular recognition site; other site 291112000310 dimerization interface; other site 291112000311 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...; Region: LuxR_C_like; cd06170 291112000312 DNA binding residues 291112000313 dimerization interface; other site 291112000314 Domain of unknown function (DUF336); Region: DUF336; cl01249 291112000315 Bacterial pullanase-associated domain; Region: PUD; pfam03714 291112000316 alpha-1,6-glucosidases, pullulanase-type; Region: pullul_strch; TIGR02103 291112000317 Pullulanase domain N-terminus. Pullulanase (AKA dextrinase; alpha-dextrin endo-1,6-alpha glucosidase) is an enzyme with action similar to that of isoamylase; it cleaves 1,6-alpha-glucosidic linkages in pullulan, amylopectin, and glycogen, and in alpha-...; Region: Pullulanase_N_term; cd02860 291112000318 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 291112000319 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 291112000320 cyanate hydratase; Validated; Region: PRK02866 291112000321 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 291112000322 oligomer interface; other site 291112000323 active site 291112000324 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 291112000325 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112000326 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 291112000327 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; cl12031 291112000328 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112000329 flavoprotein, HI0933 family; Region: TIGR00275 291112000330 Phosphate transporter family; Region: PHO4; cl00396 291112000331 Phosphate transporter family; Region: PHO4; cl00396 291112000332 Universal stress protein B (UspB); Region: UspB; cl11669 291112000333 Protein of unknown function (DUF796); Region: DUF796; cl01226 291112000334 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 291112000335 Ligand Binding Site; other site 291112000336 glutamate dehydrogenase; Provisional; Region: PRK09414 291112000337 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 291112000338 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 291112000339 NAD(P) binding site; other site 291112000340 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; cl12011 291112000341 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 291112000342 Peptidase family M3 dipeptidyl carboxypeptidase (DCP; Dcp II; peptidyl dipeptidase; EC 3.4.15.5). This metal-binding M3A family also includes oligopeptidase A (OpdA; EC 3.4.24.70) enzyme. DCP cleaves dipeptides off the C-termini of various peptides and...; Region: M3A_DCP_Oligopeptidase_A; cd06456 291112000343 active site 291112000344 zinc binding site; other site 291112000345 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 291112000346 Amidinotransferase; Region: Amidinotransf; cl12043 291112000347 Fatty acid desaturase; Region: FA_desaturase; pfam00487 291112000348 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 291112000349 putative di-iron ligands; other site 291112000350 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 291112000351 EamA-like transporter family; Region: EamA; cl01037 291112000352 Beta-lactamase; Region: Beta-lactamase; cl01009 291112000353 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 291112000354 Beta-lactamase; Region: Beta-lactamase; cl01009 291112000355 Beta-lactamase; Region: Beta-lactamase; cl01009 291112000356 Beta-lactamase; Region: Beta-lactamase; cl01009 291112000357 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 291112000358 catalytic motif; other site 291112000359 Zn binding site; other site 291112000360 mannonate dehydratase; Provisional; Region: PRK03906 291112000361 mannonate dehydratase; Region: uxuA; TIGR00695 291112000362 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 291112000363 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 291112000364 DNA binding site 291112000365 FCD domain; Region: FCD; cl11656 291112000366 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl00710 291112000367 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 291112000368 DctM-like transporters; Region: DctM; pfam06808 291112000369 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; cl09110 291112000370 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 291112000371 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 291112000372 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 291112000373 Glucuronate isomerase; Region: UxaC; cl00829 291112000374 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 291112000375 substrate binding site; other site 291112000376 ATP binding site; other site 291112000377 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 291112000378 KDPG and KHG aldolase. This family belongs to the class I adolases whose reaction mechanism involves Schiff base formation between a substrate carbonyl and lysine residue in the active site. 2-keto-3-deoxy-6-phosphogluconate (KDPG) aldolase, is best...; Region: KDPG_aldolase; cd00452 291112000379 active site 291112000380 intersubunit interface; other site 291112000381 catalytic residue; other site 291112000382 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 291112000383 Protein of unknown function (DUF796); Region: DUF796; cl01226 291112000384 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 291112000385 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 291112000386 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112000387 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 291112000388 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 291112000389 Rhomboid family; Region: Rhomboid; cl11446 291112000390 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 291112000391 active site residue 291112000392 putative DNA uptake protein; Provisional; Region: PRK11190 291112000393 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 291112000394 NifU-like domain; Region: NifU; cl00484 291112000395 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 291112000396 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 291112000397 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 291112000398 active site 291112000399 HIGH motif; other site 291112000400 dimer interface; other site 291112000401 KMSKS motif; other site 291112000402 Macrocin-O-methyltransferase (TylF); Region: TylF; pfam05711 291112000403 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase...; Region: B12-binding_like; cl00293 291112000404 Radical SAM; Region: Elp3; smart00729 291112000405 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; cl14056 291112000406 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl02184 291112000407 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl02184 291112000408 putative MFS-type transporter YdeE; Provisional; Region: PRK10054 291112000409 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112000410 putative substrate translocation pore; other site 291112000411 carboxylesterase BioH; Provisional; Region: PRK10349 291112000412 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; cl12031 291112000413 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 291112000414 non-specific DNA binding site; other site 291112000415 salt bridge; other site 291112000416 sequence-specific DNA binding site; other site 291112000417 FeoC like transcriptional regulator; Region: FeoC; pfam09012 291112000418 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 291112000419 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 291112000420 G1 box; other site 291112000421 GTP/Mg2+ binding site; other site 291112000422 Switch I region; other site 291112000423 G2 box; other site 291112000424 G3 box; other site 291112000425 Switch II region; other site 291112000426 G4 box; other site 291112000427 G5 box; other site 291112000428 Nucleoside recognition; Region: Gate; cl00486 291112000429 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 291112000430 Nucleoside recognition; Region: Gate; cl00486 291112000431 FeoA domain; Region: FeoA; cl00838 291112000432 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 291112000433 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 291112000434 Uncharacterized protein family (UPF0081); Region: UPF0081; cl00525 291112000435 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 291112000436 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin...; Region: S1_Tex; cd05685 291112000437 RNA binding site; other site 291112000438 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 291112000439 domain; Region: GreA_GreB_N; pfam03449 291112000440 C-term; Region: GreA_GreB; pfam01272 291112000441 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 291112000442 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 291112000443 pyridoxal 5'-phosphate binding pocket; other site 291112000444 catalytic residue; other site 291112000445 Major Facilitator Superfamily; Region: MFS_1; pfam07690 291112000446 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112000447 osmolarity response regulator; Provisional; Region: ompR; PRK09468 291112000448 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 291112000449 active site 291112000450 phosphorylation site 291112000451 intermolecular recognition site; other site 291112000452 dimerization interface; other site 291112000453 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...; Region: trans_reg_C; cd00383 291112000454 DNA binding site 291112000455 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 291112000456 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 connected by an extended linker. The...; Region: HAMP; cl01054 291112000457 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 trans-...; Region: HisKA; cd00082 291112000458 dimer interface; other site 291112000459 phosphorylation site 291112000460 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 291112000461 ATP binding site; other site 291112000462 Mg2+ binding site; other site 291112000463 G-X-G motif; other site 291112000464 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 291112000465 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...; Region: TM_PBP2; cd06261 291112000466 dimer interface; other site 291112000467 conserved gate region; other site 291112000468 putative PBP binding loops; other site 291112000469 ABC-ATPase subunit interface; other site 291112000470 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...; Region: TM_PBP2; cd06261 291112000471 dimer interface; other site 291112000472 conserved gate region; other site 291112000473 putative PBP binding loops; other site 291112000474 ABC-ATPase subunit interface; other site 291112000475 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 291112000476 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 291112000477 Walker A/P-loop; other site 291112000478 ATP binding site; other site 291112000479 Q-loop/lid; other site 291112000480 ABC transporter signature motif; other site 291112000481 Walker B; other site 291112000482 D-loop; other site 291112000483 H-loop/switch region; other site 291112000484 transcriptional regulator PhoU; Provisional; Region: PRK11115 291112000485 PhoU domain; Region: PhoU; pfam01895 291112000486 PhoU domain; Region: PhoU; pfam01895 291112000487 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 291112000488 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...; Region: PBPb; cd00134 291112000489 substrate binding pocket; other site 291112000490 membrane-bound complex binding site; other site 291112000491 hinge residues; other site 291112000492 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...; Region: TM_PBP2; cd06261 291112000493 dimer interface; other site 291112000494 conserved gate region; other site 291112000495 putative PBP binding loops; other site 291112000496 ABC-ATPase subunit interface; other site 291112000497 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 291112000498 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...; Region: TM_PBP2; cd06261 291112000499 dimer interface; other site 291112000500 conserved gate region; other site 291112000501 putative PBP binding loops; other site 291112000502 ABC-ATPase subunit interface; other site 291112000503 putative transposase OrfB; Reviewed; Region: PHA02517 291112000504 Integrase core domain; Region: rve; cl01316 291112000505 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 291112000506 Protein of unknown function, DUF414; Region: DUF414; cl01172 291112000507 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 291112000508 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 291112000509 FeS/SAM binding site; other site 291112000510 HemN C-terminal region; Region: HemN_C; pfam06969 291112000511 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 291112000512 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 291112000513 active site 291112000514 phosphorylation site 291112000515 intermolecular recognition site; other site 291112000516 dimerization interface; other site 291112000517 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...; Region: AAA; cd00009 291112000518 Walker A motif; other site 291112000519 ATP binding site; other site 291112000520 Walker B motif; other site 291112000521 arginine finger; other site 291112000522 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 291112000523 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 291112000524 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 291112000525 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 trans-...; Region: HisKA; cd00082 291112000526 dimer interface; other site 291112000527 phosphorylation site 291112000528 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 291112000529 ATP binding site; other site 291112000530 Mg2+ binding site; other site 291112000531 G-X-G motif; other site 291112000532 glutamine synthetase; Provisional; Region: glnA; PRK09469 291112000533 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 291112000534 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 291112000535 GTP-binding protein; Provisional; Region: PRK10218 291112000536 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 291112000537 G1 box; other site 291112000538 putative GEF interaction site; other site 291112000539 GTP/Mg2+ binding site; other site 291112000540 Switch I region; other site 291112000541 G2 box; other site 291112000542 G3 box; other site 291112000543 Switch II region; other site 291112000544 G4 box; other site 291112000545 G5 box; other site 291112000546 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 291112000547 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...; Region: BipA_TypA_C; cd03710 291112000548 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 291112000549 Carbon starvation protein CstA; Region: CstA; cl00856 291112000550 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 291112000551 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 291112000552 motif II; other site 291112000553 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but...; Region: Dtyr_deacylase; cd00563 291112000554 putative active site; other site 291112000555 dimerization interface; other site 291112000556 putative tRNAtyr binding site; other site 291112000557 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 291112000558 Coenzyme A binding pocket; other site 291112000559 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 291112000560 RelB antitoxin; Region: RelB; cl01171 291112000561 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 291112000562 AsmA family; Region: AsmA; pfam05170 291112000563 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 291112000564 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 291112000565 Permease family; Region: Xan_ur_permease; cl00967 291112000566 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; cl12073 291112000567 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 291112000568 Fic family protein [Function unknown]; Region: COG3177 291112000569 RelB antitoxin; Region: RelB; cl01171 291112000570 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 291112000571 Phd_YefM; Region: PhdYeFM; cl09153 291112000572 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 291112000573 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 four-...; Region: RecG_wedge_OBF; cd04488 291112000574 generic binding surface II; other site 291112000575 ssDNA binding site; other site 291112000576 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 291112000577 ATP binding site; other site 291112000578 putative Mg++ binding site; other site 291112000579 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 291112000580 nucleotide binding region; other site 291112000581 ATP-binding site; other site 291112000582 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 291112000583 Phage integrase family; Region: Phage_integrase; pfam00589 291112000584 DNA binding site 291112000585 Int/Topo IB signature motif; other site 291112000586 active site 291112000587 Fimbrial protein; Region: Fimbrial; cl01416 291112000588 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 291112000589 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 291112000590 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 291112000591 Fimbrial protein; Region: Fimbrial; cl01416 291112000592 Fimbrial protein; Region: Fimbrial; cl01416 291112000593 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 291112000594 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 291112000595 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 291112000596 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 291112000597 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 291112000598 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 291112000599 Fimbrial Usher protein; Region: Usher; pfam00577 291112000600 Protein of unknown function (DUF1401); Region: DUF1401; pfam07180 291112000601 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 291112000602 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 291112000603 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 291112000604 synthetase active site; other site 291112000605 NTP binding site; other site 291112000606 metal-binding site 291112000607 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...; Region: TGS_RelA_SpoT; cd01668 291112000608 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 291112000609 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl00765 291112000610 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...; Region: GMPK; cd00071 291112000611 catalytic site; other site 291112000612 G-X2-G-X-G-K; other site 291112000613 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 291112000614 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 291112000615 non-specific DNA binding site; other site 291112000616 salt bridge; other site 291112000617 sequence-specific DNA binding site; other site 291112000618 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 291112000619 CcdB protein; Region: CcdB; cl03380 291112000620 Post-segregation antitoxin CcdA; Region: CcdA; cl02188 291112000621 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 291112000622 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cl03295 291112000623 nucleotide binding pocket; other site 291112000624 K-X-D-G motif; other site 291112000625 catalytic site; other site 291112000626 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 291112000627 Predicted membrane protein [Function unknown]; Region: COG2860 291112000628 UPF0126 domain; Region: UPF0126; pfam03458 291112000629 UPF0126 domain; Region: UPF0126; pfam03458 291112000630 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 291112000631 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 291112000632 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 291112000633 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 291112000634 pyridoxal 5'-phosphate binding site; other site 291112000635 homodimer interface; other site 291112000636 catalytic residue; other site 291112000637 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 291112000638 glycyl-tRNA synthetase, tetrameric type, alpha subunit; Region: glyQ; TIGR00388 291112000639 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 291112000640 dimer interface; other site 291112000641 motif 1; other site 291112000642 active site 291112000643 motif 2; other site 291112000644 motif 3; other site 291112000645 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 291112000646 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 291112000647 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 291112000648 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 291112000649 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 291112000650 non-specific DNA binding site; other site 291112000651 salt bridge; other site 291112000652 sequence-specific DNA binding site; other site 291112000653 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 291112000654 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 291112000655 peptide binding site; other site 291112000656 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...; Region: TM_PBP2; cd06261 291112000657 dimer interface; other site 291112000658 conserved gate region; other site 291112000659 putative PBP binding loops; other site 291112000660 ABC-ATPase subunit interface; other site 291112000661 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...; Region: TM_PBP2; cd06261 291112000662 putative PBP binding loops; other site 291112000663 dimer interface; other site 291112000664 ABC-ATPase subunit interface; other site 291112000665 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 291112000666 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 291112000667 Walker A/P-loop; other site 291112000668 ATP binding site; other site 291112000669 Q-loop/lid; other site 291112000670 ABC transporter signature motif; other site 291112000671 Walker B; other site 291112000672 D-loop; other site 291112000673 H-loop/switch region; other site 291112000674 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 291112000675 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 291112000676 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 291112000677 Walker A/P-loop; other site 291112000678 ATP binding site; other site 291112000679 Q-loop/lid; other site 291112000680 ABC transporter signature motif; other site 291112000681 Walker B; other site 291112000682 D-loop; other site 291112000683 H-loop/switch region; other site 291112000684 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 291112000685 biofilm formation regulator HmsP; Provisional; Region: PRK11829 291112000686 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 291112000687 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 291112000688 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 291112000689 Uncharacterized protein conserved in bacteria (DUF2257); Region: DUF2257; cl01794 291112000690 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cd00491 291112000691 active site 1 291112000692 dimer interface; other site 291112000693 hexamer interface; other site 291112000694 active site 2 291112000695 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 291112000696 haemagglutination activity domain; Region: Haemagg_act; cl05436 291112000697 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 291112000698 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 291112000699 Surface antigen; Region: Bac_surface_Ag; cl03097 291112000700 Inclusion body protein; Region: PixA; pfam12306 291112000701 Inclusion body protein; Region: PixA; pfam12306 291112000702 Inclusion body protein; Region: PixA; pfam12306 291112000703 Inclusion body protein; Region: PixA; pfam12306 291112000704 Inclusion body protein; Region: PixA; pfam12306 291112000705 Autoinducer binding domain; Region: Autoind_bind; pfam03472 291112000706 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...; Region: LuxR_C_like; cd06170 291112000707 DNA binding residues 291112000708 dimerization interface; other site 291112000709 Inclusion body protein; Region: PixA; pfam12306 291112000710 Autoinducer binding domain; Region: Autoind_bind; pfam03472 291112000711 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...; Region: LuxR_C_like; cd06170 291112000712 DNA binding residues 291112000713 dimerization interface; other site 291112000714 Fijivirus 64 kDa capsid protein; Region: Fiji_64_capsid; pfam05880 291112000715 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 291112000716 Phage protein D [General function prediction only]; Region: COG3500; cl12180 291112000717 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 291112000718 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 291112000719 Uncharacterized conserved protein [Function unknown]; Region: COG4104 291112000720 PAAR motif; Region: PAAR_motif; pfam05488 291112000721 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 291112000722 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 291112000723 Phage protein D [General function prediction only]; Region: COG3500; cl12180 291112000724 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 291112000725 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 291112000726 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 291112000727 ImpA domain protein; Region: DUF3702; pfam12486 291112000728 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 291112000729 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 291112000730 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 291112000731 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 291112000732 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 291112000733 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 291112000734 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 291112000735 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 291112000736 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...; Region: AAA; cd00009 291112000737 Walker A motif; other site 291112000738 ATP binding site; other site 291112000739 Walker B motif; other site 291112000740 arginine finger; other site 291112000741 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...; Region: AAA; cd00009 291112000742 Walker A motif; other site 291112000743 ATP binding site; other site 291112000744 Walker B motif; other site 291112000745 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 291112000746 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 291112000747 Bacterial protein of unknown function (DUF876); Region: DUF876; cl01406 291112000748 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521; cl01405 291112000749 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 291112000750 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 291112000751 Bacterial protein of unknown function (DUF879); Region: DUF879; cl09183 291112000752 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 291112000753 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 291112000754 Protein of unknown function (DUF877); Region: DUF877; pfam05943 291112000755 Protein of unknown function (DUF770); Region: DUF770; cl01402 291112000756 Protein of unknown function (DUF796); Region: DUF796; cl01226 291112000757 Protein of unknown function (DUF519); Region: DUF519; cl04492 291112000758 glutathione reductase; Validated; Region: PRK06116 291112000759 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112000760 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 291112000761 hypothetical protein; Provisional; Region: PRK09956 291112000762 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 291112000763 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 291112000764 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and...; Region: Bact_CD; cd01293 291112000765 cytosine deaminase; Provisional; Region: PRK05985 291112000766 active site 291112000767 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa...; Region: MobB; cd03116 291112000768 Walker A motif; other site 291112000769 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 291112000770 GTP binding site; other site 291112000771 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 291112000772 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 291112000773 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 291112000774 catalytic residues; other site 291112000775 hinge region; other site 291112000776 alpha helical domain; other site 291112000777 DNA polymerase I; Provisional; Region: PRK05755 291112000778 5'-3' exonuclease; T5 type 5'-3' exonuclease domains may co-occur with DNA polymerase I (Pol I) domains, or be part of Pol I containing complexes. They digest dsDNA and ssDNA, releasing mono-,di- and tri-nucleotides, as well as oligonucleotides, and...; Region: 53EXOc; cd00008 291112000779 metal binding site I; metal-binding site 291112000780 putative ssDNA interaction site; other site 291112000781 metal binding site II; metal-binding site 291112000782 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 291112000783 active site 291112000784 catalytic site; other site 291112000785 substrate binding site; other site 291112000786 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 291112000787 active site 291112000788 DNA binding site 291112000789 catalytic site; other site 291112000790 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 291112000791 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 291112000792 G1 box; other site 291112000793 GTP/Mg2+ binding site; other site 291112000794 Switch I region; other site 291112000795 G2 box; other site 291112000796 G3 box; other site 291112000797 Switch II region; other site 291112000798 G4 box; other site 291112000799 G5 box; other site 291112000800 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 291112000801 substrate binding site; other site 291112000802 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 291112000803 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 291112000804 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 291112000805 glutamine binding; other site 291112000806 catalytic triad; other site 291112000807 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 291112000808 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 291112000809 inhibitor-cofactor binding pocket; inhibition site 291112000810 pyridoxal 5'-phosphate binding site; other site 291112000811 catalytic residue; other site 291112000812 cAMP-regulatory protein; Provisional; Region: PRK11753 291112000813 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 291112000814 ligand binding site; other site 291112000815 flexible hinge region; other site 291112000816 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 291112000817 putative switch regulator; other site 291112000818 non-specific DNA interactions; other site 291112000819 DNA binding site 291112000820 sequence specific DNA binding site; other site 291112000821 putative cAMP binding site; other site 291112000822 OsmC-like protein; Region: OsmC; cl00767 291112000823 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside...; Region: NK; cl11962 291112000824 Uncharacterized protein family (UPF0270); Region: UPF0270; cl01180 291112000825 putative hydrolase; Provisional; Region: PRK10985 291112000826 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; cl12031 291112000827 LysE type translocator; Region: LysE; cl00565 291112000828 putative ABC taurine transporter, atpase subunit, pseudogene; similar to INSD:D85613 291112000829 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...; Region: CAS_like; cl00184 291112000830 N-acetylmuramic acid phosphotransfer permease; Reviewed; Region: murP; PRK09586 291112000831 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...; Region: PTS_IIB_glc; cd00212 291112000832 active site turn 291112000833 phosphorylation site 291112000834 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 291112000835 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 291112000836 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 291112000837 putative active site; other site 291112000838 Protein of unknown function (DUF1016); Region: DUF1016; cl01979 291112000839 Protein of unknown function (DUF796); Region: DUF796; cl01226 291112000840 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 291112000841 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 291112000842 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 291112000843 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 291112000844 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 291112000845 Transcriptional regulator [Transcription]; Region: LysR; COG0583 291112000846 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112000847 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 291112000848 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112000849 Walker A/P-loop; other site 291112000850 ATP binding site; other site 291112000851 Q-loop/lid; other site 291112000852 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 291112000853 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 291112000854 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 291112000855 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 291112000856 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 291112000857 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112000858 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 291112000859 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 291112000860 Protein of unknown function (DUF2645); Region: DUF2645; pfam10840 291112000861 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 291112000862 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 291112000863 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 291112000864 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 291112000865 YheO-like PAS domain; Region: PAS_6; pfam08348 291112000866 DsrE/DsrF-like family; Region: DrsE; cl00672 291112000867 DsrE/DsrF-like family; Region: DrsE; cl00672 291112000868 DsrH like protein; Region: DsrH; cl00953 291112000869 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 291112000870 S17 interaction site; other site 291112000871 S8 interaction site; other site 291112000872 16S rRNA interaction site; other site 291112000873 streptomycin interaction site; other site 291112000874 23S rRNA interaction site; other site 291112000875 aminoacyl-tRNA interaction site (A-site); other site 291112000876 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 291112000877 elongation factor G; Reviewed; Region: PRK00007 291112000878 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 291112000879 G1 box; other site 291112000880 putative GEF interaction site; other site 291112000881 GTP/Mg2+ binding site; other site 291112000882 Switch I region; other site 291112000883 G2 box; other site 291112000884 G3 box; other site 291112000885 Switch II region; other site 291112000886 G4 box; other site 291112000887 G5 box; other site 291112000888 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...; Region: EFG_mtEFG_II; cd04088 291112000889 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...; Region: EFG_mtEFG1_IV; cd01434 291112000890 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...; Region: EFG_mtEFG_C; cd03713 291112000891 elongation factor Tu; Reviewed; Region: PRK00049 291112000892 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors...; Region: EF_Tu; cd01884 291112000893 G1 box; other site 291112000894 GEF interaction site; other site 291112000895 GTP/Mg2+ binding site; other site 291112000896 Switch I region; other site 291112000897 G2 box; other site 291112000898 G3 box; other site 291112000899 Switch II region; other site 291112000900 G4 box; other site 291112000901 G5 box; other site 291112000902 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 291112000903 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 291112000904 Antibiotic Binding Site; other site 291112000905 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 291112000906 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 291112000907 Transcription termination factor nusG; Region: NusG; cl02766 291112000908 KOW (Kyprides, Ouzounis, Woese) motif; Region: KOW; smart00739 291112000909 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 291112000910 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 291112000911 23S rRNA interface; other site 291112000912 L7/L12 interface; other site 291112000913 putative thiostrepton binding site; other site 291112000914 L25 interface; other site 291112000915 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...; Region: Ribosomal_L1; cd00403 291112000916 mRNA/rRNA interface; other site 291112000917 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...; Region: Ribosomal_L10; cd05797 291112000918 23S rRNA interface; other site 291112000919 Interface with L7/L12 ribosomal proteins; other site 291112000920 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 291112000921 core dimer interface; other site 291112000922 peripheral dimer interface; other site 291112000923 L10 interface; other site 291112000924 L11 interface; other site 291112000925 putative EF-Tu interaction site; other site 291112000926 putative EF-G interaction site; other site 291112000927 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; cl04593 291112000928 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK05258 291112000929 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 291112000930 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 291112000931 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; cl04593 291112000932 RPB11 interaction site; other site 291112000933 RPB12 interaction site; other site 291112000934 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 291112000935 RPB3 interaction site; other site 291112000936 RPB1 interaction site; other site 291112000937 RPB11 interaction site; other site 291112000938 RPB10 interaction site; other site 291112000939 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 291112000940 DNA-directed RNA polymerase, gamma subunit; Region: rpoC1_cyan; TIGR02387 291112000941 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 291112000942 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 291112000943 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK02597 291112000944 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 291112000945 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 291112000946 Rpb1 - Rpb6 interaction site; other site 291112000947 DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 291112000948 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 291112000949 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 291112000950 DNA binding site 291112000951 Rpb1 (beta') - Rpb2 (beta) interaction site; other site 291112000952 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 291112000953 non-specific DNA binding site; other site 291112000954 salt bridge; other site 291112000955 sequence-specific DNA binding site; other site 291112000956 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 291112000957 PemK-like protein; Region: PemK; cl00995 291112000958 Protein similar to CwfJ C-terminus 2; Region: CwfJ_C_2; pfam04676 291112000959 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 291112000960 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 291112000961 pyridoxal 5'-phosphate binding pocket; other site 291112000962 catalytic residue; other site 291112000963 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 291112000964 active site 291112000965 nucleotide binding site; other site 291112000966 HIGH motif; other site 291112000967 KMSKS motif; other site 291112000968 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 291112000969 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 291112000970 UDP-D-galactose:(glucosyl)lipopolysaccharide-1, 6-D-galactosyltransferase; Provisional; Region: PRK09922 291112000971 Maltose operon periplasmic protein precursor (MalM); Region: MalM; cl11647 291112000972 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel beta...; Region: Maltoporin-like; cd01346 291112000973 trimer interface; other site 291112000974 sugar binding site; other site 291112000975 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 291112000976 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 291112000977 Walker A/P-loop; other site 291112000978 ATP binding site; other site 291112000979 Q-loop/lid; other site 291112000980 ABC transporter signature motif; other site 291112000981 Walker B; other site 291112000982 D-loop; other site 291112000983 H-loop/switch region; other site 291112000984 TOBE domain; Region: TOBE_2; cl01440 291112000985 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 291112000986 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 291112000987 maltose transporter membrane protein; Provisional; Region: malF; PRK10999 291112000988 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...; Region: TM_PBP2; cd06261 291112000989 dimer interface; other site 291112000990 conserved gate region; other site 291112000991 putative PBP binding loops; other site 291112000992 ABC-ATPase subunit interface; other site 291112000993 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...; Region: TM_PBP2; cd06261 291112000994 dimer interface; other site 291112000995 conserved gate region; other site 291112000996 putative PBP binding loops; other site 291112000997 ABC-ATPase subunit interface; other site 291112000998 Sulfatase; Region: Sulfatase; cl10460 291112000999 Arginase family; Region: Arginase; cl00306 291112001000 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 291112001001 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 291112001002 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 291112001003 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 291112001004 active site pocket 291112001005 transcriptional regulator MalT; Provisional; Region: PRK04841 291112001006 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...; Region: LuxR_C_like; cd06170 291112001007 DNA binding residues 291112001008 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112001009 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 291112001010 putative substrate translocation pore; other site 291112001011 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 291112001012 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 291112001013 inhibitor-cofactor binding pocket; inhibition site 291112001014 pyridoxal 5'-phosphate binding site; other site 291112001015 catalytic residue; other site 291112001016 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 291112001017 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 291112001018 NAD(P) binding site; other site 291112001019 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 291112001020 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; cl11391 291112001021 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 291112001022 motif II; other site 291112001023 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 291112001024 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 291112001025 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 291112001026 FeS/SAM binding site; other site 291112001027 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 291112001028 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 291112001029 ThiS interaction site; other site 291112001030 putative active site; other site 291112001031 tetramer interface; other site 291112001032 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 291112001033 thiS-thiF/thiG interaction site; other site 291112001034 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 291112001035 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...; Region: ThiF_MoeB_HesA_family; cd00757 291112001036 ATP binding site; other site 291112001037 substrate interface; other site 291112001038 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- (beta...; Region: TMP_TenI; cd00564 291112001039 thiamine phosphate binding site; other site 291112001040 active site 291112001041 pyrophosphate binding site; other site 291112001042 ThiC family; Region: ThiC; cl08031 291112001043 H+ Antiporter protein; Region: 2A0121; TIGR00900 291112001044 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112001045 The peptidase M3-like family, also called neurolysin-like family, is part of the 'zincins' metallopeptidases, and includes M3, M2 and M32 families of metallopeptidases. The M3 family is subdivided into two subfamilies: the widespread M3A, which...; Region: Peptidase_M3_like; cl10025 291112001046 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; cl11391 291112001047 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 291112001048 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 291112001049 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 291112001050 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 291112001051 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 291112001052 putative NADH binding site; other site 291112001053 putative active site; other site 291112001054 nudix motif; other site 291112001055 putative metal binding site; other site 291112001056 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...; Region: URO-D; cd00717 291112001057 substrate binding site; other site 291112001058 active site 291112001059 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 291112001060 active site 291112001061 Protein of unknown function, DUF; Region: DUF416; cl01166 291112001062 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 higher...; Region: HU_IHF; cd00591 291112001063 IHF dimer interface; other site 291112001064 IHF - DNA interface; other site 291112001065 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 291112001066 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 291112001067 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 291112001068 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 291112001069 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 291112001070 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 291112001071 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 5-aminoimidazole-4-carboxamide-; Region: IMPCH; cd01421 291112001072 purine monophosphate binding site; other site 291112001073 dimer interface; other site 291112001074 putative catalytic residues; other site 291112001075 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 291112001076 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 291112001077 Protein of unknown function, DUF484; Region: DUF484; cl01228 291112001078 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 291112001079 proposed active site lysine; other site 291112001080 conserved cys residue; other site 291112001081 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 291112001082 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 291112001083 malate synthase A; Region: malate_syn_A; TIGR01344 291112001084 active site 291112001085 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 291112001086 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 291112001087 tetramer interface; other site 291112001088 active site 291112001089 Mg2+/Mn2+ binding site; other site 291112001090 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 291112001091 transcriptional repressor IclR; Provisional; Region: PRK11569 291112001092 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112001093 Bacterial transcriptional regulator; Region: IclR; pfam01614 291112001094 Peptidase dimerization domain; Region: M20_dimer; cl09126 291112001095 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 291112001096 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; cl12031 291112001097 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 291112001098 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 291112001099 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 291112001100 inhibitor-cofactor binding pocket; inhibition site 291112001101 pyridoxal 5'-phosphate binding site; other site 291112001102 catalytic residue; other site 291112001103 Predicted dehydrogenase [General function prediction only]; Region: COG5322 291112001104 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 291112001105 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 291112001106 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 291112001107 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; cl12011 291112001108 conserved hypothetical protein TIGR02687; Region: TIGR02687 291112001109 PglZ domain; Region: PglZ; pfam08665 291112001110 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 291112001111 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 291112001112 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; cl12011 291112001113 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 291112001114 HipA N-terminal domain; Region: couple_hipA; TIGR03071 291112001115 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 291112001116 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a...; Region: Hint; cl12032 291112001117 hypothetical protein; Reviewed; Region: PRK09588 291112001118 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 291112001119 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 291112001120 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 291112001121 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 291112001122 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 291112001123 carboxyltransferase (CT) interaction site; other site 291112001124 biotinylation site; other site 291112001125 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 291112001126 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 291112001127 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 291112001128 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 291112001129 LamB/YcsF family; Region: LamB_YcsF; cl00664 291112001130 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 291112001131 haemagglutination activity domain; Region: Haemagg_act; cl05436 291112001132 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 291112001133 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112001134 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112001135 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112001136 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112001137 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 291112001138 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 291112001139 active site 291112001140 Acyl transferase domain; Region: Acyl_transf_1; cl08282 291112001141 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 291112001142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112001143 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112001144 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112001145 thioester reductase domain; Region: Thioester-redct; TIGR01746 291112001146 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112001147 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112001148 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112001149 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112001150 Condensation domain; Region: Condensation; cl09290 291112001151 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112001152 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112001153 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112001154 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112001155 Condensation domain; Region: Condensation; cl09290 291112001156 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 291112001157 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...; Region: Pep_deformylase; cd00487 291112001158 active site 291112001159 catalytic residues; other site 291112001160 metal-binding site 291112001161 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 291112001162 S-adenosylmethionine binding site; other site 291112001163 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 291112001164 non-specific DNA binding site; other site 291112001165 salt bridge; other site 291112001166 sequence-specific DNA binding site; other site 291112001167 Predicted transcriptional regulator [Transcription]; Region: Nlp; cl01357 291112001168 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 291112001169 non-specific DNA binding site; other site 291112001170 salt bridge; other site 291112001171 sequence-specific DNA binding site; other site 291112001172 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 291112001173 Cupin domain; Region: Cupin_2; cl09118 291112001174 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 291112001175 catalytic motif; other site 291112001176 Catalytic residue; other site 291112001177 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...; Region: PDZ_metalloprotease; cd00989 291112001178 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 291112001179 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 291112001180 active site 291112001181 Inosine-uridine preferring nucleoside hydrolase; Region: IU_nuc_hydro; pfam01156 291112001182 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 291112001183 active site 291112001184 tetramer interface; other site 291112001185 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...; Region: LuxR_C_like; cd06170 291112001186 DNA binding residues 291112001187 dimerization interface; other site 291112001188 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112001189 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 291112001190 Cupin domain; Region: Cupin_2; cl09118 291112001191 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 291112001192 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 291112001193 NAD(P) binding site; other site 291112001194 catalytic residues; other site 291112001195 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 291112001196 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...; Region: LuxR_C_like; cd06170 291112001197 DNA binding residues 291112001198 dimerization interface; other site 291112001199 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 291112001200 Protein of unknown function (DUF3156); Region: DUF3156; pfam11354 291112001201 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 291112001202 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 291112001203 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 291112001204 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 291112001205 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 291112001206 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; cl12031 291112001207 Alkaline phosphatase homologues; Region: alkPPc; smart00098 291112001208 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH...; Region: alkPPc; cd00016 291112001209 active site 291112001210 dimer interface; other site 291112001211 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 291112001212 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 291112001213 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 291112001214 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 291112001215 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 291112001216 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; cl12011 291112001217 DNA polymerase III psi subunit; Region: DNA_III_psi; cl11436 291112001218 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 291112001219 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 291112001220 Coenzyme A binding pocket; other site 291112001221 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 291112001222 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 291112001223 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 291112001224 G1 box; other site 291112001225 putative GEF interaction site; other site 291112001226 GTP/Mg2+ binding site; other site 291112001227 Switch I region; other site 291112001228 G2 box; other site 291112001229 G3 box; other site 291112001230 Switch II region; other site 291112001231 G4 box; other site 291112001232 G5 box; other site 291112001233 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 291112001234 Putative phospholipid-binding domain; Region: BON; cl02771 291112001235 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 291112001236 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 291112001237 active site 291112001238 nucleophile elbow; other site 291112001239 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 291112001240 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 291112001241 active site 291112001242 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 291112001243 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 291112001244 Nucleoside recognition; Region: Gate; cl00486 291112001245 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 291112001246 Uncharacterized conserved protein [Function unknown]; Region: COG4104 291112001247 Uncharacterized conserved protein [Function unknown]; Region: COG4104 291112001248 Uncharacterized conserved protein [Function unknown]; Region: COG4104 291112001249 Uncharacterized conserved protein [Function unknown]; Region: COG4104 291112001250 Uncharacterized conserved protein [Function unknown]; Region: COG4104 291112001251 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 291112001252 Phage protein D [General function prediction only]; Region: COG3500; cl12180 291112001253 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 291112001254 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 291112001255 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family. DERA belongs to the class I aldolases and catalyzes a reversible aldol reaction between acetaldehyde and glyceraldehyde 3-phosphate to generate 2-deoxyribose 5-phosphate. DERA is unique in...; Region: DeoC; cd00959 291112001256 intersubunit interface; other site 291112001257 active site 291112001258 catalytic residue; other site 291112001259 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 291112001260 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 291112001261 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 291112001262 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 291112001263 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl12023 291112001264 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 291112001265 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 291112001266 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 291112001267 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 291112001268 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 291112001269 homodimer interface; other site 291112001270 substrate-cofactor binding pocket; other site 291112001271 pyridoxal 5'-phosphate binding site; other site 291112001272 catalytic residue; other site 291112001273 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 291112001274 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 291112001275 dimer interface; other site 291112001276 pyridoxal 5'-phosphate binding site; other site 291112001277 catalytic residue; other site 291112001278 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as...; Region: CBS_pair_PALP_assoc2; cd04609 291112001279 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 291112001280 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 291112001281 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; cl11391 291112001282 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 291112001283 motif II; other site 291112001284 DNA repair protein RadA; Provisional; Region: PRK11823 291112001285 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 291112001286 Walker A motif/ATP binding site; other site 291112001287 ATP binding site; other site 291112001288 Walker B motif; other site 291112001289 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 291112001290 nicotinamide-nucleotide adenylyltransferase; Provisional; Region: PRK08099 291112001291 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 291112001292 active site 291112001293 nucleotide binding site; other site 291112001294 HIGH motif; other site 291112001295 KMSKS motif; other site 291112001296 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; cl01238 291112001297 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 291112001298 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 291112001299 Walker A/P-loop; other site 291112001300 ATP binding site; other site 291112001301 Q-loop/lid; other site 291112001302 ABC transporter signature motif; other site 291112001303 Walker B; other site 291112001304 D-loop; other site 291112001305 H-loop/switch region; other site 291112001306 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 291112001307 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 291112001308 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112001309 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 291112001310 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 291112001311 lytic murein transglycosylase; Provisional; Region: PRK11619 291112001312 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 catalyze...; Region: LT_GEWL; cd00254 291112001313 N-acetyl-D-glucosamine binding site; other site 291112001314 catalytic residue; other site 291112001315 Trp repressor protein; Region: Trp_repressor; cl01121 291112001316 Protein of unknown function DUF84; Region: NTPase_I-T; cl00866 291112001317 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 291112001318 catalytic core; other site 291112001319 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 291112001320 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 291112001321 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 291112001322 CreA protein; Region: CreA; cl01154 291112001323 two-component response regulator; Provisional; Region: PRK11173 291112001324 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 291112001325 active site 291112001326 phosphorylation site 291112001327 intermolecular recognition site; other site 291112001328 dimerization interface; other site 291112001329 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...; Region: trans_reg_C; cd00383 291112001330 DNA binding site 291112001331 bifunctional aspartokinase I/homeserine dehydrogenase I; Provisional; Region: thrA; PRK09436 291112001332 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli AKI-...; Region: AAK_AK-HSDH; cd04257 291112001333 putative catalytic residues; other site 291112001334 putative nucleotide binding site; other site 291112001335 putative aspartate binding site; other site 291112001336 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 291112001337 dimer interface; other site 291112001338 putative threonine allosteric regulatory site; other site 291112001339 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 291112001340 putative threonine allosteric regulatory site; other site 291112001341 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112001342 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 291112001343 homoserine kinase; Provisional; Region: PRK01212 291112001344 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 291112001345 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 291112001346 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 291112001347 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 291112001348 pyridoxal 5'-phosphate binding site; other site 291112001349 catalytic residue; other site 291112001350 Protein of unknown function (DUF328); Region: DUF328; cl01143 291112001351 H+ Antiporter protein; Region: 2A0121; TIGR00900 291112001352 Transaldolases including both TalA and TalB. The enzyme catalyses the reversible transfer of a dyhydroxyacetone moiety, derived from fructose-6-phosphate to erythrose-4-phosphate yielding sedoheptulose-7-phosphate and glyceraldehyde-3-phosphate. The...; Region: Transaldolase_TalAB; cd00957 291112001353 active site 291112001354 dimer interface; other site 291112001355 catalytic residue; other site 291112001356 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 291112001357 MPT binding site; other site 291112001358 trimer interface; other site 291112001359 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 291112001360 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 291112001361 dimer interface; other site 291112001362 active site 291112001363 galactokinase; Provisional; Region: PRK05101 291112001364 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 291112001365 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 291112001366 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 291112001367 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 291112001368 chaperone protein DnaJ; Provisional; Region: PRK10767 291112001369 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...; Region: DnaJ; cd06257 291112001370 HSP70 interaction site; other site 291112001371 DnaJ C terminal region; Region: DnaJ_C; pfam01556 291112001372 DnaJ C terminal region; Region: DnaJ_C; pfam01556 291112001373 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 291112001374 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 291112001375 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 291112001376 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 291112001377 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...; Region: PTS_IIB_glc; cd00212 291112001378 active site turn 291112001379 phosphorylation site 291112001380 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 291112001381 transcriptional antiterminator BglG; Provisional; Region: PRK09772 291112001382 CAT RNA binding domain; Region: CAT_RBD; pfam03123 291112001383 PRD domain; Region: PRD; pfam00874 291112001384 PRD domain; Region: PRD; pfam00874 291112001385 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 291112001386 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...; Region: PTS_IIB_glc; cd00212 291112001387 active site turn 291112001388 phosphorylation site 291112001389 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 291112001390 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_glc; cl00162 291112001391 HPr interaction site; other site 291112001392 glycerol kinase (GK) interaction site; other site 291112001393 active site 291112001394 phosphorylation site 291112001395 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 291112001396 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 291112001397 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112001398 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 291112001399 putative dimerization interface; other site 291112001400 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 291112001401 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 291112001402 riboflavin kinase, C-terminal domain of the bifunctional riboflavin biosynthesis protein; Region: Flavokinase_C; cd02064 291112001403 active site 291112001404 Riboflavin kinase; Region: Flavokinase; pfam01687 291112001405 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 291112001406 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 291112001407 HIGH motif; other site 291112001408 active site 291112001409 nucleotide binding site; other site 291112001410 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 291112001411 active site 291112001412 KMSKS motif; other site 291112001413 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 291112001414 tRNA binding surface; other site 291112001415 anticodon binding site; other site 291112001416 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 291112001417 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 291112001418 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 291112001419 LytB protein; Region: LYTB; cl00507 291112001420 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 291112001421 dihydrodipicolinate reductase; Provisional; Region: PRK00048 291112001422 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112001423 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 291112001424 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 291112001425 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 291112001426 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 291112001427 catalytic site; other site 291112001428 subunit interface; other site 291112001429 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 291112001430 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 291112001431 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 291112001432 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 291112001433 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 291112001434 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 291112001435 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 291112001436 IMP binding site; other site 291112001437 dimer interface; other site 291112001438 interdomain contacts; other site 291112001439 partial ornithine binding site; other site 291112001440 LysE type translocator; Region: LysE; cl00565 291112001441 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 5,10...; Region: DHFR; cd00209 291112001442 folate binding site; other site 291112001443 NADP+ binding site; other site 291112001444 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 291112001445 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 291112001446 active site 291112001447 metal-binding site 291112001448 Protein of unknown function (DUF525); Region: DUF525; cl01119 291112001449 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; cl12011 291112001450 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 291112001451 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 291112001452 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 291112001453 SurA N-terminal domain; Region: SurA_N; pfam09312 291112001454 PPIC-type PPIASE domain; Region: Rotamase; cl08278 291112001455 PPIC-type PPIASE domain; Region: Rotamase; cl08278 291112001456 organic solvent tolerance protein; Provisional; Region: PRK03761 291112001457 OstA-like protein; Region: OstA; cl00844 291112001458 Organic solvent tolerance protein; Region: OstA_C; pfam04453 291112001459 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 291112001460 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 291112001461 putative metal binding site; other site 291112001462 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...; Region: DnaJ; cl02542 291112001463 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 291112001464 active site 291112001465 ATP-dependent helicase HepA; Validated; Region: PRK04914 291112001466 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 291112001467 ATP binding site; other site 291112001468 putative Mg++ binding site; other site 291112001469 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 291112001470 nucleotide binding region; other site 291112001471 ATP-binding site; other site 291112001472 DNA polymerase type-B family catalytic domain. DNA-directed DNA polymerases elongate DNA by adding nucleotide triphosphate (dNTP) residues to the 5'-end of the growing chain of DNA. DNA-directed DNA polymerases are multifunctional with both synthetic (...; Region: POLBc; cl10023 291112001473 Membrane transport protein; Region: Mem_trans; cl09117 291112001474 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 291112001475 ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP. Probably responsible for the translocation of thiamine across the membrane. ABC transporters are a large family of proteins...; Region: ABC_ThiQ_thiamine_transporter; cd03298 291112001476 Walker A/P-loop; other site 291112001477 ATP binding site; other site 291112001478 Q-loop/lid; other site 291112001479 ABC transporter signature motif; other site 291112001480 Walker B; other site 291112001481 D-loop; other site 291112001482 H-loop/switch region; other site 291112001483 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 291112001484 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...; Region: TM_PBP2; cd06261 291112001485 dimer interface; other site 291112001486 conserved gate region; other site 291112001487 putative PBP binding loops; other site 291112001488 ABC-ATPase subunit interface; other site 291112001489 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...; Region: TM_PBP2; cl00427 291112001490 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 291112001491 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 291112001492 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...; Region: Ap4A_hydrolase_plant_like; cd03671 291112001493 putative active site; other site 291112001494 Ap4A binding site; other site 291112001495 nudix motif; other site 291112001496 putative metal binding site; other site 291112001497 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 291112001498 GAF domain; Region: GAF; cl00853 291112001499 PEP-utilising enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 291112001500 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 291112001501 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 291112001502 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 291112001503 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 291112001504 dimerization interface; other site 291112001505 active site 291112001506 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 291112001507 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 291112001508 hypothetical protein; Provisional; Region: PRK10506 291112001509 hypothetical protein; Provisional; Region: PRK10557 291112001510 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 291112001511 Protein of unknown function (DUF2509); Region: DUF2509; cl11672 291112001512 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 291112001513 Prepilin peptidase dependent protein C; Region: DUF3728; cl08108 291112001514 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 291112001515 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 291112001516 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 291112001517 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 291112001518 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 291112001519 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 291112001520 UvrD/REP helicase; Region: UvrD-helicase; cl14126 291112001521 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 291112001522 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 291112001523 Putative ATPase (DUF699); Region: DUF699; pfam05127 291112001524 UvrD/REP helicase; Region: UvrD-helicase; cl14126 291112001525 N-acetylglutamate synthase; Validated; Region: PRK05279 291112001526 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an N-...; Region: AAK_NAGS-ABP; cd04237 291112001527 putative feedback inhibition sensing region; other site 291112001528 putative nucleotide binding site; other site 291112001529 putative substrate binding site; other site 291112001530 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 291112001531 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 291112001532 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 291112001533 active site 291112001534 metal-binding site 291112001535 murein transglycosylase A; Provisional; Region: mltA; PRK11162 291112001536 MltA specific insert domain; Region: MltA; pfam03562 291112001537 3D domain; Region: 3D; cl01439 291112001538 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 291112001539 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin...; Region: YgdL_like; cd00755 291112001540 putative ATP binding site; other site 291112001541 putative substrate interface; other site 291112001542 Fe-S metabolism associated domain; Region: SufE; cl00951 291112001543 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 291112001544 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 291112001545 pyridoxal 5'-phosphate binding pocket; other site 291112001546 catalytic residue; other site 291112001547 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 291112001548 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112001549 HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 291112001550 dimerization interface; other site 291112001551 substrate binding pocket; other site 291112001552 Protein of unknown function (DUF423); Region: DUF423; cl01008 291112001553 putative RNA 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 291112001554 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; cl12011 291112001555 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 291112001556 active site 291112001557 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; cl12108 291112001558 Protease inhibitor Inh; Region: Inh; pfam02974 291112001559 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 291112001560 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 291112001561 Walker A/P-loop; other site 291112001562 ATP binding site; other site 291112001563 Q-loop/lid; other site 291112001564 ABC transporter signature motif; other site 291112001565 Walker B; other site 291112001566 D-loop; other site 291112001567 H-loop/switch region; other site 291112001568 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 291112001569 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...; Region: Biotinyl_lipoyl_domains; cl11404 291112001570 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 291112001571 Outer membrane efflux protein; Region: OEP; pfam02321 291112001572 Outer membrane efflux protein; Region: OEP; pfam02321 291112001573 exonuclease IX; Provisional; Region: xni; PRK09482 291112001574 5'-3' exonuclease; T5 type 5'-3' exonuclease domains may co-occur with DNA polymerase I (Pol I) domains, or be part of Pol I containing complexes. They digest dsDNA and ssDNA, releasing mono-,di- and tri-nucleotides, as well as oligonucleotides, and...; Region: 53EXOc; cd00008 291112001575 metal binding site I; metal-binding site 291112001576 putative ssDNA interaction site; other site 291112001577 metal binding site II; metal-binding site 291112001578 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 291112001579 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 291112001580 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 291112001581 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 291112001582 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 291112001583 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; cl11391 291112001584 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 291112001585 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 291112001586 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 291112001587 pyridoxal 5'-phosphate binding site; other site 291112001588 homodimer interface; other site 291112001589 catalytic residue; other site 291112001590 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside...; Region: NK; cl11962 291112001591 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 291112001592 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 291112001593 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 291112001594 Integrase core domain; Region: rve; cl01316 291112001595 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112001596 Condensation domain; Region: Condensation; cl09290 291112001597 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 291112001598 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 291112001599 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112001600 Walker A/P-loop; other site 291112001601 ATP binding site; other site 291112001602 Q-loop/lid; other site 291112001603 ABC transporter signature motif; other site 291112001604 Walker B; other site 291112001605 D-loop; other site 291112001606 H-loop/switch region; other site 291112001607 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 291112001608 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 291112001609 pyridoxal 5'-phosphate (PLP) binding site; other site 291112001610 catalytic residue; other site 291112001611 AMP-binding enzyme; Region: AMP-binding; pfam00501 291112001612 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112001613 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 291112001614 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 291112001615 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats with a...; Region: EPT_RTPC-like; cl00288 291112001616 putative active site; other site 291112001617 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; cl14056 291112001618 Syd protein; Region: Syd; cl06405 291112001619 Domain of unknown function, DUF446; Region: DUF446; cl01187 291112001620 tRNA pseudouridine isomerase C: Pseudouridine synthases catalyze the isomerization of specific uridines in an tRNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. TruC makes psi65 in tRNAs. This psi residue is not...; Region: PseudoU_synth_TruC; cd02563 291112001621 probable active site; other site 291112001622 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 291112001623 Protein of unknown function (DUF3461); Region: DUF3461; cl10125 291112001624 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 291112001625 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 291112001626 trimer interface; other site 291112001627 active site 291112001628 substrate binding site; other site 291112001629 CoA binding site; other site 291112001630 PII uridylyl-transferase; Provisional; Region: PRK05007 291112001631 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 291112001632 metal binding triad; other site 291112001633 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 291112001634 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 291112001635 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 291112001636 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 291112001637 methionine aminopeptidase; Reviewed; Region: PRK07281 291112001638 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 291112001639 active site 291112001640 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 291112001641 rRNA interaction site; other site 291112001642 S8 interaction site; other site 291112001643 putative laminin-1 binding site; other site 291112001644 elongation factor Ts; Provisional; Region: tsf; PRK09377 291112001645 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 291112001646 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 291112001647 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...; Region: AAK_UMPK-PyrH-Ec; cd04254 291112001648 putative nucleotide binding site; other site 291112001649 uridine monophosphate binding site; other site 291112001650 homohexameric interface; other site 291112001651 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 round of...; Region: RRF; cd00520 291112001652 hinge region; other site 291112001653 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 291112001654 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 291112001655 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 291112001656 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 291112001657 catalytic residue; other site 291112001658 putative FPP diphosphate binding site; other site 291112001659 putative FPP binding hydrophobic cleft; other site 291112001660 dimer interface; other site 291112001661 putative IPP diphosphate binding site; other site 291112001662 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 291112001663 zinc metallopeptidase RseP; Provisional; Region: PRK10779 291112001664 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 291112001665 active site 291112001666 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...; Region: PDZ_metalloprotease; cd00989 291112001667 protein binding site; other site 291112001668 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...; Region: PDZ_metalloprotease; cd00989 291112001669 protein binding site; other site 291112001670 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 291112001671 putative substrate binding region; other site 291112001672 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 291112001673 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 291112001674 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 291112001675 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 291112001676 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 291112001677 Surface antigen; Region: Bac_surface_Ag; cl03097 291112001678 Outer membrane protein (OmpH-like); Region: OmpH; cl08146 291112001679 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 291112001680 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 291112001681 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 291112001682 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2,3-...; Region: LbH_LpxD; cd03352 291112001683 trimer interface; other site 291112001684 active site 291112001685 UDP-GlcNAc binding site; other site 291112001686 lipid-binding site 291112001687 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 291112001688 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 291112001689 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A...; Region: LbH_UDP-GlcNAc_AT; cd03351 291112001690 active site 291112001691 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 291112001692 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 291112001693 bacterial Ribonuclease HII-like; Region: RNaseH_typeII_bacteria_HII_like; cd07182 291112001694 active site 291112001695 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 291112001696 DNA polymerase alpha chain like domain; Region: POLIIIAc; cl02625 291112001697 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 291112001698 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...; Region: DnaE_OBF; cd04485 291112001699 generic binding surface II; other site 291112001700 generic binding surface I; other site 291112001701 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 291112001702 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 291112001703 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 291112001704 Ligand Binding Site; other site 291112001705 TilS substrate binding domain; Region: TilS; pfam09179 291112001706 B3/4 domain; Region: B3_4; cl11458 291112001707 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; cl09210 291112001708 Uncharacterized lipoprotein NlpE involved in copper resistance; Region: NlpE; cl01138 291112001709 prolyl-tRNA synthetase; Provisional; Region: PRK09194 291112001710 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 formation...; Region: ProRS_core_prok; cd00779 291112001711 dimer interface; other site 291112001712 motif 1; other site 291112001713 active site 291112001714 motif 2; other site 291112001715 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and single-...; Region: ProRS-INS; cd04334 291112001716 putative deacylase active site; other site 291112001717 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 291112001718 active site 291112001719 motif 3; other site 291112001720 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-...; Region: ProRS_anticodon_short; cd00861 291112001721 anticodon binding site; other site 291112001722 Uncharacterized protein family UPF0066; Region: UPF0066; cl00749 291112001723 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 291112001724 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 291112001725 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...; Region: TM_PBP2; cd06261 291112001726 dimer interface; other site 291112001727 conserved gate region; other site 291112001728 ABC-ATPase subunit interface; other site 291112001729 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 291112001730 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein...; Region: ABC_MetN_methionine_transporter; cd03258 291112001731 Walker A/P-loop; other site 291112001732 ATP binding site; other site 291112001733 Q-loop/lid; other site 291112001734 ABC transporter signature motif; other site 291112001735 Walker B; other site 291112001736 D-loop; other site 291112001737 H-loop/switch region; other site 291112001738 NIL domain; Region: NIL; pfam09383 291112001739 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 291112001740 active site 291112001741 motif I; other site 291112001742 motif II; other site 291112001743 Transposase DDE domain; Region: Transposase_11; pfam01609 291112001744 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 291112001745 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 291112001746 Amino acid permease; Region: AA_permease; pfam00324 291112001747 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 291112001748 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; cl14056 291112001749 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 291112001750 active site 291112001751 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 291112001752 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 291112001753 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 291112001754 FAD binding pocket; other site 291112001755 FAD binding motif; other site 291112001756 catalytic residues; other site 291112001757 NAD binding pocket; other site 291112001758 phosphate binding motif; other site 291112001759 beta-alpha-beta structure motif; other site 291112001760 sulfite reductase subunit beta; Provisional; Region: PRK13504 291112001761 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 291112001762 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 291112001763 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 291112001764 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 291112001765 Active Sites; active site 291112001766 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 291112001767 siroheme synthase; Provisional; Region: cysG; PRK10637 291112001768 precorrin-2 dehydrogenase; Validated; Region: PRK06719 291112001769 Sirohaem synthase dimerization region; Region: CysG_dimerizer; pfam10414 291112001770 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 291112001771 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 291112001772 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 291112001773 Active Sites; active site 291112001774 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 291112001775 Switch II region; other site 291112001776 G4 box; other site 291112001777 G5 box; other site 291112001778 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...; Region: CysN_NodQ_II; cd03695 291112001779 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...; Region: CysN_NoDQ_III; cd04095 291112001780 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 important for the assimilation...; Region: APSK; cd02027 291112001781 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 291112001782 ligand-binding site; other site 291112001783 Septum formation initiator; Region: DivIC; cl11433 291112001784 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 291112001785 substrate binding site; other site 291112001786 dimer interface; other site 291112001787 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...; Region: MECDP_synthase; cd00554 291112001788 homotrimer interaction site; other site 291112001789 zinc binding site; other site 291112001790 CDP-binding sites; other site 291112001791 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 291112001792 PseudoU_synth_EcTruD: Pseudouridine synthase, TruD family. This group consists of bacterial pseudouridine synthases similar to Escherichia coli TruD. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_EcTruD; cd02575 291112001793 Permutation of conserved domain; other site 291112001794 active site 291112001795 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 291112001796 Survival protein SurE; Region: SurE; cl00448 291112001797 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 291112001798 S-adenosylmethionine binding site; other site 291112001799 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 291112001800 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 291112001801 putative peptidoglycan binding site; other site 291112001802 Peptidase family M23; Region: Peptidase_M23; pfam01551 291112001803 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 291112001804 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 291112001805 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 291112001806 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 291112001807 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...; Region: Sigma70_r4; cl01055 291112001808 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 291112001809 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 291112001810 active site 291112001811 dinuclear metal binding site; other site 291112001812 dimerization interface; other site 291112001813 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 291112001814 MutS domain I; Region: MutS_I; pfam01624 291112001815 MutS domain II; Region: MutS_II; pfam05188 291112001816 MutS domain III; Region: MutS_III; cl04977 291112001817 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 291112001818 Walker A/P-loop; other site 291112001819 ATP binding site; other site 291112001820 Q-loop/lid; other site 291112001821 ABC transporter signature motif; other site 291112001822 Walker B; other site 291112001823 D-loop; other site 291112001824 H-loop/switch region; other site 291112001825 DNA-binding transcriptional activator FucR; Provisional; Region: PRK10411 291112001826 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112001827 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 291112001828 L-fuculokinase; Provisional; Region: PRK10331 291112001829 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 291112001830 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 291112001831 L-fucose isomerase; Provisional; Region: fucI; PRK10991 291112001832 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of...; Region: L-fuc_L-ara-isomerases; cl00947 291112001833 hexamer (dimer of trimers) interface; other site 291112001834 trimer interface; other site 291112001835 substrate binding site; other site 291112001836 Mn binding site; other site 291112001837 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 291112001838 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112001839 putative substrate translocation pore; other site 291112001840 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II)...; Region: Aldolase_II; cd00398 291112001841 intersubunit interface; other site 291112001842 active site 291112001843 Zn2+ binding site; other site 291112001844 Fic family protein [Function unknown]; Region: COG3177 291112001845 Fic/DOC family; Region: Fic; cl00960 291112001846 hypothetical protein; Provisional; Region: PRK09694 291112001847 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 291112001848 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; cl12029 291112001849 CRISPR-associated protein Cse1 (CRISPR_cse1); Region: CRISPR_Cse1; cl08044 291112001850 CRISPR-associated protein Cse2 (CRISPR_cse2); Region: CRISPR_Cse2; cl09719 291112001851 CT1975-like protein; Region: Cas_CT1975; cl09608 291112001852 CRISPR-associated protein Cas5, N-terminal domain; Region: CRISPR_cas5; cl12040 291112001853 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 291112001854 CRISPR associated protein; Region: CRISPR_assoc; cl08497 291112001855 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 291112001856 active site flap/lid 291112001857 nucleophilic elbow; other site 291112001858 catalytic triad; other site 291112001859 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 291112001860 FimB and FimE and related proteins, DNA breaking-rejoining enzymes, integrase/recombinases, catalytic domain. This CD includes those proteins similar to E.coli FimE and FimB regulatory proteins and Proteus mirabilis MrpI; Region: INT_FimBE_C; cd01197 291112001861 Phage integrase family; Region: Phage_integrase; pfam00589 291112001862 Int/Topo IB signature motif; other site 291112001863 Fimbrial protein; Region: Fimbrial; cl01416 291112001864 Fimbrial protein; Region: Fimbrial; cl01416 291112001865 Fimbrial Usher protein; Region: Usher; pfam00577 291112001866 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 291112001867 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 291112001868 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 291112001869 Fimbrial protein; Region: Fimbrial; cl01416 291112001870 Fimbrial protein; Region: Fimbrial; cl01416 291112001871 Fimbrial protein; Region: Fimbrial; cl01416 291112001872 Fimbrial protein; Region: Fimbrial; cl01416 291112001873 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 291112001874 non-specific DNA binding site; other site 291112001875 salt bridge; other site 291112001876 sequence-specific DNA binding site; other site 291112001877 nucleoside triphosphatase YtkD; Region: nudix_YtkD; TIGR02705 291112001878 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...; Region: Nudix_Hydrolase; cl00447 291112001879 nudix motif; other site 291112001880 adenylosuccinate synthetase; Provisional; Region: PRK01117 291112001881 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 r-...; Region: AdSS; cd03108 291112001882 GDP-binding site; other site 291112001883 ACT binding site; other site 291112001884 IMP binding site; other site 291112001885 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; cl11391 291112001886 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 291112001887 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 291112001888 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 291112001889 catalytic residues; other site 291112001890 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 291112001891 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 291112001892 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 291112001893 Fe-S containing; Region: FDH-beta; TIGR01582 291112001894 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 291112001895 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 291112001896 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 291112001897 [4Fe-4S] binding site; other site 291112001898 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 291112001899 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 291112001900 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 291112001901 molybdopterin cofactor binding site; other site 291112001902 Fic/DOC family; Region: Fic; cl00960 291112001903 Fic/DOC family; Region: Fic; cl00960 291112001904 Curli production assembly/transport component CsgG; Region: CsgG; cl00639 291112001905 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 291112001906 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 291112001907 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 291112001908 MatE; Region: MatE; pfam01554 291112001909 MatE; Region: MatE; pfam01554 291112001910 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 291112001911 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl00287 291112001912 ATP binding site; other site 291112001913 substrate interface; other site 291112001914 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 291112001915 EamA-like transporter family; Region: EamA; cl01037 291112001916 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 291112001917 The peptidase M3-like family, also called neurolysin-like family, is part of the 'zincins' metallopeptidases, and includes M3, M2 and M32 families of metallopeptidases. The M3 family is subdivided into two subfamilies: the widespread M3A, which...; Region: Peptidase_M3_like; cl10025 291112001918 active site 291112001919 zinc binding site; other site 291112001920 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 291112001921 dimer interface; other site 291112001922 ligand binding site; other site 291112001923 Uncharacterized protein family (UPF0261); Region: UPF0261; cl02262 291112001924 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 291112001925 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 291112001926 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)...; Region: Trp-synth-beta_II; cl00342 291112001927 catalytic residue; other site 291112001928 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)...; Region: Trp-synth-beta_II; cl00342 291112001929 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 291112001930 tRNA synthetases class I (K); Region: tRNA-synt_1f; pfam01921 291112001931 active site 291112001932 nucleotide binding site; other site 291112001933 HIGH motif; other site 291112001934 KMSKS motif; other site 291112001935 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 291112001936 NAD(P) binding site; other site 291112001937 catalytic residues; other site 291112001938 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 291112001939 NAD(P) binding site; other site 291112001940 catalytic residues; other site 291112001941 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112001942 Major Facilitator Superfamily; Region: MFS_1; pfam07690 291112001943 putative substrate translocation pore; other site 291112001944 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 291112001945 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 291112001946 Walker A/P-loop; other site 291112001947 ATP binding site; other site 291112001948 Q-loop/lid; other site 291112001949 ABC transporter signature motif; other site 291112001950 Walker B; other site 291112001951 D-loop; other site 291112001952 H-loop/switch region; other site 291112001953 TOBE domain; Region: TOBE_2; cl01440 291112001954 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 291112001955 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...; Region: TM_PBP2; cd06261 291112001956 dimer interface; other site 291112001957 conserved gate region; other site 291112001958 putative PBP binding loops; other site 291112001959 ABC-ATPase subunit interface; other site 291112001960 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...; Region: TM_PBP2; cd06261 291112001961 dimer interface; other site 291112001962 conserved gate region; other site 291112001963 putative PBP binding loops; other site 291112001964 ABC-ATPase subunit interface; other site 291112001965 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 291112001966 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 291112001967 regulatory protein UhpC; Provisional; Region: PRK11663 291112001968 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112001969 putative substrate translocation pore; other site 291112001970 Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]; Region: UhpB; COG3851 291112001971 MASE1; Region: MASE1; cl01367 291112001972 Histidine kinase; Region: HisKA_3; pfam07730 291112001973 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 291112001974 ATP binding site; other site 291112001975 Mg2+ binding site; other site 291112001976 G-X-G motif; other site 291112001977 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 291112001978 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 291112001979 active site 291112001980 phosphorylation site 291112001981 intermolecular recognition site; other site 291112001982 dimerization interface; other site 291112001983 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...; Region: LuxR_C_like; cd06170 291112001984 DNA binding residues 291112001985 dimerization interface; other site 291112001986 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 291112001987 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; cl12031 291112001988 nucleophilic elbow; other site 291112001989 catalytic triad; other site 291112001990 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 291112001991 Beta-lactamase; Region: Beta-lactamase; cl01009 291112001992 DNA-binding transcriptional regulator AgaR; Provisional; Region: PRK09802 291112001993 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112001994 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 291112001995 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 291112001996 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 291112001997 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 291112001998 dimer interface; other site 291112001999 active site 291112002000 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases...; Region: SIS_AgaS_like; cd05010 291112002001 putative active site; other site 291112002002 Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four...; Region: PTS_IIB_man; cd00001 291112002003 active site 291112002004 phosphorylation site 291112002005 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 291112002006 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 291112002007 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...; Region: PTS_IIA_man; cd00006 291112002008 active pocket/dimerization site; other site 291112002009 active site 291112002010 phosphorylation site 291112002011 tagatose-bisphosphate aldolase; Reviewed; Region: gatY; PRK09195 291112002012 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose...; Region: TBP_aldolase_IIB; cd00947 291112002013 intersubunit interface; other site 291112002014 active site 291112002015 zinc binding site; other site 291112002016 Na+ binding site; other site 291112002017 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 291112002018 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 291112002019 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 291112002020 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 291112002021 Protein of unknown function (DUF796); Region: DUF796; cl01226 291112002022 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 291112002023 Isochorismatase family; Region: Isochorismatase; pfam00857 291112002024 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 291112002025 catalytic triad; other site 291112002026 conserved cis-peptide bond; other site 291112002027 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 291112002028 spermidine synthase; Provisional; Region: PRK00811 291112002029 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 291112002030 S-adenosylmethionine binding site; other site 291112002031 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 291112002032 multicopper oxidase; Provisional; Region: PRK10965 291112002033 Multicopper oxidase; Region: Cu-oxidase; cl11412 291112002034 Multicopper oxidase; Region: Cu-oxidase; cl11412 291112002035 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 291112002036 PemK-like protein; Region: PemK; cl00995 291112002037 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 291112002038 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 291112002039 active site clefts 291112002040 zinc binding site; other site 291112002041 dimer interface; other site 291112002042 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 291112002043 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112002044 Walker A/P-loop; other site 291112002045 ATP binding site; other site 291112002046 Q-loop/lid; other site 291112002047 ABC transporter signature motif; other site 291112002048 Walker B; other site 291112002049 D-loop; other site 291112002050 H-loop/switch region; other site 291112002051 ABC-2 type transporter; Region: ABC2_membrane; cl11417 291112002052 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 291112002053 tetramerization interface; other site 291112002054 active site 291112002055 Pantoate-beta-alanine ligase; Region: PanC; cd00560 291112002056 pantoate--beta-alanine ligase; Region: panC; TIGR00018 291112002057 active site 291112002058 ATP-binding site; other site 291112002059 pantoate-binding site; other site 291112002060 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 291112002061 oligomerization interface; other site 291112002062 active site 291112002063 metal-binding site 291112002064 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 291112002065 catalytic center binding site; other site 291112002066 ATP binding site; other site 291112002067 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 291112002068 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 291112002069 active site 291112002070 NTP binding site; other site 291112002071 metal binding triad; metal-binding site 291112002072 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 291112002073 HIGH motif; other site 291112002074 active site 291112002075 nucleotide binding site; other site 291112002076 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 291112002077 KMSKS motif; other site 291112002078 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 291112002079 Sugar fermentation stimulation protein; Region: SfsA; cl00647 291112002080 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 291112002081 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 291112002082 ATP binding site; other site 291112002083 putative Mg++ binding site; other site 291112002084 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; cl12029 291112002085 Helicase associated domain (HA2); Region: HA2; cl04503 291112002086 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 291112002087 penicillin-binding protein 1b; Reviewed; Region: mrcB; PRK09506 291112002088 Transglycosylase; Region: Transgly; cl07896 291112002089 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 291112002090 Uncharacterized conserved protein [Function unknown]; Region: COG4104 291112002091 PAAR motif; Region: PAAR_motif; pfam05488 291112002092 S-type Pyocin; Region: Pyocin_S; pfam06958 291112002093 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_cladeD; cd03379 291112002094 active site clefts 291112002095 zinc binding site; other site 291112002096 dimer interface; other site 291112002097 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 291112002098 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 291112002099 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 291112002100 inhibitor-cofactor binding pocket; inhibition site 291112002101 pyridoxal 5'-phosphate binding site; other site 291112002102 catalytic residue; other site 291112002103 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 291112002104 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 291112002105 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal...; Region: BtuF; cd01144 291112002106 cobalamin binding residues; other site 291112002107 putative BtuC binding residues; other site 291112002108 dimer interface; other site 291112002109 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 291112002110 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 291112002111 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 291112002112 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 291112002113 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 connected by an extended linker. The...; Region: HAMP; cl01054 291112002114 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 trans-...; Region: HisKA; cd00082 291112002115 dimer interface; other site 291112002116 phosphorylation site 291112002117 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 291112002118 ATP binding site; other site 291112002119 Mg2+ binding site; other site 291112002120 G-X-G motif; other site 291112002121 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 291112002122 active site 291112002123 phosphorylation site 291112002124 intermolecular recognition site; other site 291112002125 dimerization interface; other site 291112002126 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 291112002127 putative binding surface; other site 291112002128 active site 291112002129 23S rRNA 5-methyluridine methyltransferase; Reviewed; Region: rumA; PRK13168 291112002130 TRAM domain; Region: TRAM; cl01282 291112002131 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; cl12011 291112002132 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 291112002133 S-adenosylmethionine binding site; other site 291112002134 GDP/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 291112002135 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 291112002136 synthetase active site; other site 291112002137 NTP binding site; other site 291112002138 metal-binding site 291112002139 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...; Region: TGS_RelA_SpoT; cd01668 291112002140 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 291112002141 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 291112002142 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00737 291112002143 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00737 291112002144 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112002145 Walker A/P-loop; other site 291112002146 ATP binding site; other site 291112002147 Q-loop/lid; other site 291112002148 ABC transporter signature motif; other site 291112002149 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112002150 Walker B; other site 291112002151 D-loop; other site 291112002152 H-loop/switch region; other site 291112002153 CTP synthetase; Validated; Region: pyrG; PRK05380 291112002154 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...; Region: CTGs; cd03113 291112002155 Catalytic site; other site 291112002156 active site 291112002157 UTP binding site; other site 291112002158 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 291112002159 active site 291112002160 putative oxyanion hole; other site 291112002161 catalytic triad; other site 291112002162 phosphopyruvate hydratase; Provisional; Region: eno; PRK00077 291112002163 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 291112002164 dimer interface; other site 291112002165 metal-binding site 291112002166 substrate binding pocket; other site 291112002167 Predicted transcriptional regulator [Transcription]; Region: Nlp; cl01357 291112002168 PAS fold; Region: PAS_4; pfam08448 291112002169 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...; Region: LuxR_C_like; cd06170 291112002170 DNA binding residues 291112002171 dimerization interface; other site 291112002172 PAS fold; Region: PAS_4; pfam08448 291112002173 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...; Region: LuxR_C_like; cd06170 291112002174 DNA binding residues 291112002175 dimerization interface; other site 291112002176 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 291112002177 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 291112002178 transmembrane helices; other site 291112002179 ATP synthase archaeal, B subunit; Region: ATP_syn_B_arch; TIGR01041 291112002180 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1,6...; Region: IMPase_like; cd01637 291112002181 active site 291112002182 hypothetical protein; Provisional; Region: PRK06267 291112002183 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 291112002184 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...; Region: TMPK; cd01672 291112002185 TMP-binding site; other site 291112002186 ATP-binding site; other site 291112002187 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 291112002188 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 291112002189 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 291112002190 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 291112002191 MLTD_N; Region: MLTD_N; pfam06474 291112002192 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 catalyze...; Region: LT_GEWL; cd00254 291112002193 N-acetyl-D-glucosamine binding site; other site 291112002194 catalytic residue; other site 291112002195 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 291112002196 putative peptidoglycan binding site; other site 291112002197 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 291112002198 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 291112002199 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; cl12011 291112002200 RNase H (RNase HI) is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a not sequence-specific manner. One of the important functions of RNase H is to remove Okazaki fragments during DNA replication. RNase H knockout mice lack...; Region: RnaseH; cd06222 291112002201 RNA/DNA hybrid binding site; other site 291112002202 active site 291112002203 Proteobacterial; Region: dnaQ_proteo; TIGR01406 291112002204 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 291112002205 active site 291112002206 substrate binding site; other site 291112002207 catalytic site; other site 291112002208 Predicted transcriptional regulator [Transcription]; Region: Nlp; cl01357 291112002209 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 291112002210 Integrase core domain; Region: rve; cl01316 291112002211 PAS fold; Region: PAS_4; pfam08448 291112002212 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...; Region: LuxR_C_like; cl10457 291112002213 PAS fold; Region: PAS_4; pfam08448 291112002214 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...; Region: LuxR_C_like; cd06170 291112002215 DNA binding residues 291112002216 dimerization interface; other site 291112002217 PAS fold; Region: PAS_4; pfam08448 291112002218 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...; Region: LuxR_C_like; cl10457 291112002219 transketolase; Reviewed; Region: PRK12753 291112002220 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 291112002221 TPP-binding site; other site 291112002222 dimer interface; other site 291112002223 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 291112002224 PYR/PP interface; other site 291112002225 dimer interface; other site 291112002226 TPP binding site; other site 291112002227 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 291112002228 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 291112002229 Protein of unknown function (DUF692); Region: DUF692; cl01263 291112002230 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 291112002231 DoxX; Region: DoxX; cl00976 291112002232 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 291112002233 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 291112002234 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 291112002235 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 291112002236 Insertion element protein; Region: Ins_element1; pfam03811 291112002237 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 291112002238 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112002239 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 291112002240 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 291112002241 substrate binding site; other site 291112002242 hinge regions; other site 291112002243 ADP binding site; other site 291112002244 catalytic site; other site 291112002245 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 291112002246 active site 291112002247 intersubunit interface; other site 291112002248 zinc binding site; other site 291112002249 Na+ binding site; other site 291112002250 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 291112002251 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 291112002252 Condensation domain; Region: Condensation; cl09290 291112002253 Nonribosomal peptide synthase; Region: NRPS; pfam08415 291112002254 Condensation domain; Region: Condensation; cl09290 291112002255 Nonribosomal peptide synthase; Region: NRPS; pfam08415 291112002256 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112002257 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112002258 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112002259 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112002260 Condensation domain; Region: Condensation; cl09290 291112002261 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 291112002262 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor...; Region: FhuD; cd01146 291112002263 siderophore binding site; other site 291112002264 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...; Region: TM_ABC_iron-siderophores_like; cd06550 291112002265 ABC-ATPase subunit interface; other site 291112002266 dimer interface; other site 291112002267 putative PBP binding regions; other site 291112002268 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 291112002269 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...; Region: TM_ABC_iron-siderophores_like; cd06550 291112002270 ABC-ATPase subunit interface; other site 291112002271 dimer interface; other site 291112002272 putative PBP binding regions; other site 291112002273 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 291112002274 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 291112002275 N-terminal plug; other site 291112002276 ligand-binding site; other site 291112002277 Condensation domain; Region: Condensation; cl09290 291112002278 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112002279 Condensation domain; Region: Condensation; cl09290 291112002280 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 291112002281 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 291112002282 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 291112002283 Walker A/P-loop; other site 291112002284 ATP binding site; other site 291112002285 Q-loop/lid; other site 291112002286 ABC transporter signature motif; other site 291112002287 Walker B; other site 291112002288 D-loop; other site 291112002289 H-loop/switch region; other site 291112002290 chorismate binding enzyme; Region: Chorismate_bind; cl10555 291112002291 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 291112002292 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112002293 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in...; Region: isochorismatase; cd01013 291112002294 hydrophobic substrate binding pocket; other site 291112002295 Isochorismatase family; Region: Isochorismatase; pfam00857 291112002296 active site 291112002297 conserved cis-peptide bond; other site 291112002298 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112002299 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112002300 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 291112002301 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 291112002302 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 291112002303 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 291112002304 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 291112002305 Salmonella virulence plasmid 28.1kDa A protein; Region: VRP1; pfam03538 291112002306 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 291112002307 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 291112002308 Transposase DDE domain; Region: Transposase_11; pfam01609 291112002309 Salmonella virulence plasmid 28.1kDa A protein; Region: VRP1; pfam03538 291112002310 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 291112002311 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 291112002312 inner membrane transporter YhiP; Provisional; Region: PRK10207 291112002313 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112002314 putative substrate translocation pore; other site 291112002315 Flavin Reductases; Region: FlaRed; cl00801 291112002316 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 291112002317 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 291112002318 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 291112002319 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 291112002320 active site 291112002321 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 291112002322 Acyl transferase domain; Region: Acyl_transf_1; cl08282 291112002323 polyketide-type polyunsaturated fatty acid synthase PfaA; Region: omega_3_PfaA; TIGR02813 291112002324 polyketide-type polyunsaturated fatty acid synthase PfaA; Region: omega_3_PfaA; TIGR02813 291112002325 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112002326 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 291112002327 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 291112002328 active site 291112002329 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 291112002330 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 291112002331 active site 291112002332 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 291112002333 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 291112002334 active site 2 291112002335 active site 1 291112002336 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding...; Region: NPD_FabD; cd04742 291112002337 FMN binding site; other site 291112002338 substrate binding site; other site 291112002339 putative catalytic residue; other site 291112002340 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 291112002341 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 291112002342 pyridoxal 5'-phosphate binding pocket; other site 291112002343 catalytic residue; other site 291112002344 Protein of unknown function (DUF796); Region: DUF796; cl01226 291112002345 Protein of unknown function (DUF796); Region: DUF796; cl01226 291112002346 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 291112002347 Cupin domain; Region: Cupin_2; cl09118 291112002348 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 291112002349 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112002350 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 291112002351 putative substrate translocation pore; other site 291112002352 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 291112002353 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 291112002354 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 291112002355 delta-1-pyrroline-5-carboxylate dehydrogenase, group 2, putative; Region: D1pyr5carbox2; TIGR01237 291112002356 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 291112002357 tetramerization interface; other site 291112002358 NAD(P) binding site; other site 291112002359 catalytic residues; other site 291112002360 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112002361 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 291112002362 putative substrate translocation pore; other site 291112002363 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 291112002364 putative substrate binding pocket; other site 291112002365 trimer interface; other site 291112002366 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 291112002367 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 291112002368 putative active site; other site 291112002369 putative metal binding site; other site 291112002370 delta-1-pyrroline-5-carboxylate dehydrogenase, group 2, putative; Region: D1pyr5carbox2; TIGR01237 291112002371 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 291112002372 NAD binding site; other site 291112002373 catalytic residues; other site 291112002374 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 291112002375 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 291112002376 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 291112002377 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112002378 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK01287 291112002379 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 291112002380 DNA binding site 291112002381 Int/Topo IB signature motif; other site 291112002382 active site 291112002383 CHC2 zinc finger; Region: zf-CHC2; cl02597 291112002384 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 291112002385 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 291112002386 active site 291112002387 metal-binding site 291112002388 interdomain interaction site; other site 291112002389 HSP20-like domain of unknown function (DUF1813); Region: DUF1813; cl07446 291112002390 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 291112002391 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK01287 291112002392 N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 291112002393 Int/Topo IB signature motif; other site 291112002394 active site 291112002395 CHC2 zinc finger; Region: zf-CHC2; cl02597 291112002396 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 291112002397 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 291112002398 active site 291112002399 metal-binding site 291112002400 interdomain interaction site; other site 291112002401 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 291112002402 sequence-specific DNA binding site; other site 291112002403 salt bridge; other site 291112002404 HSP20-like domain of unknown function (DUF1813); Region: DUF1813; cl07446 291112002405 SMI1 / KNR4 family; Region: SMI1_KNR4; cl01747 291112002406 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 291112002407 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK01287 291112002408 N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 291112002409 Int/Topo IB signature motif; other site 291112002410 active site 291112002411 CHC2 zinc finger; Region: zf-CHC2; cl02597 291112002412 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 291112002413 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 291112002414 active site 291112002415 metal-binding site 291112002416 interdomain interaction site; other site 291112002417 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 291112002418 sequence-specific DNA binding site; other site 291112002419 salt bridge; other site 291112002420 HSP20-like domain of unknown function (DUF1813); Region: DUF1813; cl07446 291112002421 SMI1 / KNR4 family; Region: SMI1_KNR4; cl01747 291112002422 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK01287 291112002423 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 291112002424 DNA binding site 291112002425 Int/Topo IB signature motif; other site 291112002426 active site 291112002427 CHC2 zinc finger; Region: zf-CHC2; cl02597 291112002428 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 291112002429 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 291112002430 active site 291112002431 metal-binding site 291112002432 interdomain interaction site; other site 291112002433 HSP20-like domain of unknown function (DUF1813); Region: DUF1813; cl07446 291112002434 Uncharacterized conserved protein [Function unknown]; Region: COG4104 291112002435 PAAR motif; Region: PAAR_motif; pfam05488 291112002436 RHS Repeat; Region: RHS_repeat; cl11982 291112002437 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 291112002438 RHS Repeat; Region: RHS_repeat; cl11982 291112002439 RHS Repeat; Region: RHS_repeat; cl11982 291112002440 RHS Repeat; Region: RHS_repeat; cl11982 291112002441 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 291112002442 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 291112002443 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 291112002444 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 291112002445 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 291112002446 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 291112002447 Fimbrial protein; Region: Fimbrial; cl01416 291112002448 Fimbrial Usher protein; Region: Usher; pfam00577 291112002449 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 291112002450 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 291112002451 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 291112002452 Fimbrial protein; Region: Fimbrial; cl01416 291112002453 LysE type translocator; Region: LysE; cl00565 291112002454 putative cation:proton antiport protein; Provisional; Region: PRK10669 291112002455 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 291112002456 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112002457 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112002458 Major Facilitator Superfamily; Region: MFS_1; pfam07690 291112002459 putative substrate translocation pore; other site 291112002460 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 291112002461 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 291112002462 active site 291112002463 metal-binding site 291112002464 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 291112002465 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 291112002466 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 291112002467 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 291112002468 Walker A/P-loop; other site 291112002469 ATP binding site; other site 291112002470 Q-loop/lid; other site 291112002471 ABC transporter signature motif; other site 291112002472 Walker B; other site 291112002473 D-loop; other site 291112002474 H-loop/switch region; other site 291112002475 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 291112002476 active site 291112002477 catalytic triad; other site 291112002478 oxyanion hole; other site 291112002479 switch loop; other site 291112002480 short chain dehydrogenase; Provisional; Region: PRK06914 291112002481 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 291112002482 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112002483 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 291112002484 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 291112002485 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 291112002486 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 291112002487 NfeD-like; Region: NfeD; cl00686 291112002488 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 291112002489 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 291112002490 DNA binding residues 291112002491 dimer interface; other site 291112002492 copper binding site; other site 291112002493 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 291112002494 metal-binding site 291112002495 copper exporting ATPase; Provisional; Region: copA; PRK10671 291112002496 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 291112002497 metal-binding site 291112002498 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 291112002499 metal-binding site 291112002500 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 291112002501 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 291112002502 motif II; other site 291112002503 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 291112002504 GumN protein; Region: GumN; cl12050 291112002505 pyrimidine utilization protein A; Region: RutA; TIGR03612 291112002506 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 291112002507 active site 291112002508 dimer interface; other site 291112002509 non-prolyl cis peptide bond; other site 291112002510 insertion regions; other site 291112002511 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 291112002512 Major Facilitator Superfamily; Region: MFS_1; pfam07690 291112002513 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 291112002514 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 291112002515 Lumazine binding domain; Region: Lum_binding; pfam00677 291112002516 Lumazine binding domain; Region: Lum_binding; pfam00677 291112002517 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 291112002518 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 291112002519 AIR carboxylase; Region: AIRC; cl00310 291112002520 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2908 291112002521 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 291112002522 putative active site; other site 291112002523 putative metal binding site; other site 291112002524 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 291112002525 substrate binding site; other site 291112002526 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 291112002527 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 291112002528 active site 291112002529 HIGH motif; other site 291112002530 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 291112002531 KMSKS motif; other site 291112002532 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 291112002533 tRNA binding surface; other site 291112002534 anticodon binding site; other site 291112002535 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 291112002536 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 291112002537 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 291112002538 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 291112002539 homodimer interface; other site 291112002540 NADP binding site; other site 291112002541 substrate binding site; other site 291112002542 integrase; Provisional; Region: PRK09692 291112002543 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 291112002544 Int/Topo IB signature motif; other site 291112002545 active site 291112002546 Predicted transcriptional regulator [Transcription]; Region: Nlp; cl01357 291112002547 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 291112002548 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; cl07038 291112002549 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...; Region: TOPRIM_primases; cd01029 291112002550 active site 291112002551 metal-binding site 291112002552 interdomain interaction site; other site 291112002553 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112002554 Walker A motif; other site 291112002555 ATP binding site; other site 291112002556 Walker B motif; other site 291112002557 Ash protein family; Region: Phage_ASH; pfam10554 291112002558 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl01302 291112002559 integrase; Provisional; Region: PRK09692 291112002560 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 291112002561 Int/Topo IB signature motif; other site 291112002562 active site 291112002563 Protein of unknown function DUF262; Region: DUF262; pfam03235 291112002564 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 291112002565 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; cl14056 291112002566 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 291112002567 FeS/SAM binding site; other site 291112002568 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 291112002569 Phage Tail Collar Domain; Region: Collar; pfam07484 291112002570 Phage Tail Collar Domain; Region: Collar; pfam07484 291112002571 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 291112002572 Coenzyme A transferase; Region: CoA_trans; cl00773 291112002573 Coenzyme A transferase; Region: CoA_trans; cl00773 291112002574 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 291112002575 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...; Region: AAA; cd00009 291112002576 Walker A motif; other site 291112002577 ATP binding site; other site 291112002578 Walker B motif; other site 291112002579 arginine finger; other site 291112002580 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 291112002581 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 protein...; Region: CSP_CDS; cd04458 291112002582 DNA binding site 291112002583 RNA-binding motif; other site 291112002584 type III secretion system protein; Reviewed; Region: PRK06937 291112002585 Flagellar assembly protein FliH; Region: FliH; pfam02108 291112002586 YOP proteins translocation protein K (YscK); Region: YscK; pfam06578 291112002587 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 291112002588 Type III secretion needle MxiH like; Region: MxiH; cl09641 291112002589 YopR Core; Region: YopR_core; cl07585 291112002590 Bacterial type II secretion system chaperone protein (type_III_yscG); Region: Type_III_YscG; cl09712 291112002591 Type III secretion needle MxiH like; Region: MxiH; cl09641 291112002592 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 291112002593 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 291112002594 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 291112002595 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 291112002596 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 291112002597 Tir chaperone protein (CesT); Region: CesT; cl08444 291112002598 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 291112002599 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 291112002600 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 291112002601 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 291112002602 active site 291112002603 nucleophile elbow; other site 291112002604 Type III secretory pathway, component EscU [Intracellular trafficking and secretion]; Region: EscU; COG4792 291112002605 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 291112002606 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 291112002607 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 291112002608 FliP family; Region: FliP; cl00593 291112002609 type III secretion system protein; Validated; Region: PRK06933 291112002610 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 291112002611 type III secretion system needle length determinant; Region: type_III_yscP; TIGR02514 291112002612 Type III secretion protein YscO; Region: YscO; pfam07321 291112002613 type III secretion system ATPase; Provisional; Region: PRK06936 291112002614 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 291112002615 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 291112002616 Walker A motif/ATP binding site; other site 291112002617 Walker B motif; other site 291112002618 HrpJ-like domain; Region: HrpJ; cl06298 291112002619 TyeA; Region: TyeA; cl07611 291112002620 type III secretion chaperone SycN; Region: type_III_SycN; TIGR02503 291112002621 Type III secretion system YscX (type_III_YscX); Region: Type_III_YscX; cl09710 291112002622 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 291112002623 FHIPEP family; Region: FHIPEP; cl07980 291112002624 Type III secretion system regulator (LcrR); Region: LcrR; cl09838 291112002625 LcrG protein; Region: LcrG; cl06311 291112002626 V antigen (LcrV) protein; Region: LcrV; pfam04792 291112002627 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 291112002628 binding surface 291112002629 TPR motif; other site 291112002630 Uncharacterized conserved protein [Function unknown]; Region: COG5613 291112002631 Secretion system effector C (SseC) like family; Region: SseC; pfam04888 291112002632 YopD protein; Region: YopD; pfam05844 291112002633 Tir chaperone protein (CesT); Region: CesT; cl08444 291112002634 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl09836 291112002635 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 291112002636 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; cl12031 291112002637 Phage holin family (Lysis protein S); Region: Phage_holin_3; cl04938 291112002638 virion protein; Provisional; Region: V; PHA02564 291112002639 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 291112002640 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 291112002641 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 291112002642 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 291112002643 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 291112002644 Low molecular weight phosphatase family; Region: LMWPc; cd00115 291112002645 active site 291112002646 tyrosine kinase; Provisional; Region: PRK11519 291112002647 Chain length determinant protein; Region: Wzz; cl01623 291112002648 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 291112002649 tellurite resistance protein TehB; Provisional; Region: PRK12335 291112002650 Domain of unknown function (DUF1971); Region: DUF1971; cl01451 291112002651 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; cl12011 291112002652 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 291112002653 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 291112002654 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 291112002655 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 291112002656 putative transposase OrfB; Reviewed; Region: PHA02517 291112002657 Integrase core domain; Region: rve; cl01316 291112002658 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 291112002659 NAD(P) binding site; other site 291112002660 catalytic residues; other site 291112002661 Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_f; cd01139 291112002662 putative ligand binding residues; other site 291112002663 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 291112002664 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 291112002665 catalytic loop; other site 291112002666 iron binding site; other site 291112002667 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 291112002668 Divalent cation transporter; Region: MgtE; cl00786 291112002669 SprT homologues; Region: SprT; cl01182 291112002670 SprT-like family; Region: SprT-like; pfam10263 291112002671 S-adenosylmethionine synthetase; Validated; Region: PRK05250 291112002672 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 291112002673 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 291112002674 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 291112002675 arginine decarboxylase; Provisional; Region: PRK05354 291112002676 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 291112002677 dimer interface; other site 291112002678 active site 291112002679 pyridoxal 5'-phosphate (PLP) binding site; other site 291112002680 catalytic residues; other site 291112002681 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 291112002682 Arginase family; Region: Arginase; cl00306 291112002683 Integral membrane protein TerC family; Region: TerC; cl10468 291112002684 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex...; Region: MutH_Sau3AI; cd00583 291112002685 putative DNA-binding cleft; other site 291112002686 putative DNA clevage site; other site 291112002687 molecular lever; other site 291112002688 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 291112002689 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 291112002690 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 3-...; Region: IPMI_Swivel; cd01577 291112002691 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 291112002692 substrate binding site; other site 291112002693 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 291112002694 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 291112002695 substrate binding site; other site 291112002696 ligand binding site; other site 291112002697 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 291112002698 isocitrate dehydrogenase; Validated; Region: PRK06451 291112002699 2-isopropylmalate synthase; Validated; Region: PRK00915 291112002700 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 291112002701 active site 291112002702 catalytic residues; other site 291112002703 metal-binding site 291112002704 LeuA allosteric (dimerization) domain; Region: LeuA_dimer; pfam08502 291112002705 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 291112002706 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112002707 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 291112002708 putative substrate binding pocket; other site 291112002709 putative dimerization interface; other site 291112002710 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 291112002711 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112002712 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112002713 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; cl12031 291112002714 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 291112002715 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 291112002716 PYR/PP interface; other site 291112002717 dimer interface; other site 291112002718 TPP binding site; other site 291112002719 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 291112002720 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 291112002721 TPP-binding site; other site 291112002722 dimer interface; other site 291112002723 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 291112002724 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 291112002725 putative valine binding site; other site 291112002726 dimer interface; other site 291112002727 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 291112002728 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 291112002729 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 291112002730 DNA binding site 291112002731 domain linker motif; other site 291112002732 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 291112002733 dimerization interface; other site 291112002734 ligand binding site; other site 291112002735 cell division protein MraZ; Reviewed; Region: PRK00326 291112002736 MraZ protein; Region: MraZ; pfam02381 291112002737 MraZ protein; Region: MraZ; pfam02381 291112002738 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; cl12011 291112002739 Septum formation initiator; Region: DivIC; cl11433 291112002740 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 291112002741 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 291112002742 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 291112002743 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 291112002744 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 291112002745 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 291112002746 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 291112002747 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 291112002748 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 291112002749 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 291112002750 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 291112002751 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 291112002752 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 undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 291112002753 Mg++ binding site; other site 291112002754 putative catalytic motif; other site 291112002755 putative substrate binding site; other site 291112002756 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 291112002757 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 291112002758 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 291112002759 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 291112002760 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 291112002761 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...; Region: GT1_MurG; cd03785 291112002762 active site 291112002763 homodimer interface; other site 291112002764 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 291112002765 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 291112002766 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 291112002767 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 291112002768 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 291112002769 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 291112002770 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 291112002771 cell division protein FtsQ; Provisional; Region: PRK10775 291112002772 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 291112002773 Cell division protein FtsQ; Region: FtsQ; pfam03799 291112002774 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 291112002775 Cell division protein FtsA; Region: FtsA; cl11496 291112002776 Cell division protein FtsA; Region: FtsA; cl11496 291112002777 cell division protein FtsZ; Validated; Region: PRK09330 291112002778 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...; Region: FtsZ_type1; cd02201 291112002779 nucleotide binding site; other site 291112002780 SulA interaction site; other site 291112002781 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 291112002782 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 291112002783 Protein of unknown function (DUF721); Region: DUF721; cl02324 291112002784 Secretion monitor precursor protein (SecM); Region: SecM; cl11636 291112002785 SecA DEAD-like domain; Region: SecA_DEAD; pfam07517 291112002786 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; cl12029 291112002787 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 291112002788 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 291112002789 hypothetical protein; Provisional; Region: PRK05590 291112002790 SEC-C motif; Region: SEC-C; cl12132 291112002791 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 291112002792 active site 291112002793 8-oxo-dGMP binding site; other site 291112002794 nudix motif; other site 291112002795 metal-binding site 291112002796 Domain of unknown function (DUF329); Region: DUF329; cl01144 291112002797 Protein of unknown function (DUF1342); Region: DUF1342; cl01892 291112002798 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 291112002799 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 291112002800 CoA-binding site; other site 291112002801 ATP-binding; other site 291112002802 type IV pilin biogenesis protein; Provisional; Region: PRK10573 291112002803 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 291112002804 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 291112002805 hypothetical protein; Provisional; Region: PRK10436 291112002806 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 291112002807 Walker A motif; other site 291112002808 ATP binding site; other site 291112002809 Walker B motif; other site 291112002810 putative major pilin subunit; Provisional; Region: PRK10574 291112002811 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 291112002812 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 5-...; Region: QPRTase; cd01572 291112002813 dimerization interface; other site 291112002814 active site 291112002815 CobD/Cbib protein; Region: CobD_Cbib; cl00561 291112002816 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 291112002817 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 291112002818 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 291112002819 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 291112002820 DNA binding site 291112002821 FCD domain; Region: FCD; cl11656 291112002822 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 291112002823 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 291112002824 dimer interface; other site 291112002825 TPP-binding site; other site 291112002826 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 291112002827 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 291112002828 E3 interaction surface; other site 291112002829 lipoyl attachment site; other site 291112002830 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 291112002831 E3 interaction surface; other site 291112002832 lipoyl attachment site; other site 291112002833 e3 binding domain; Region: E3_binding; pfam02817 291112002834 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 291112002835 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112002836 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 291112002837 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112002838 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 291112002839 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 291112002840 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change...; Region: AcnB_Swivel; cd01576 291112002841 substrate binding site; other site 291112002842 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 291112002843 substrate binding site; other site 291112002844 ligand binding site; other site 291112002845 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 291112002846 Uncharacterized protein family (UPF0231); Region: UPF0231; cl11474 291112002847 mechanosensitive channel MscS; Provisional; Region: PRK10334 291112002848 Mechanosensitive ion channel; Region: MS_channel; pfam00924 291112002849 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 291112002850 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 291112002851 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 291112002852 FeS/SAM binding site; other site 291112002853 LysE type translocator; Region: LysE; cl00565 291112002854 Protein of unknown function (DUF541); Region: SIMPL; cl01077 291112002855 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 291112002856 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112002857 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 291112002858 putative dimerization interface; other site 291112002859 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 291112002860 tetramer (dimer of dimers) interface; other site 291112002861 active site 291112002862 dimer interface; other site 291112002863 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 291112002864 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112002865 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 291112002866 L-serine binding site; other site 291112002867 ACT domain interface; other site 291112002868 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 291112002869 Cell division protein ZapA; Region: ZapA; cl01146 291112002870 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 291112002871 proline aminopeptidase P II; Provisional; Region: PRK10879 291112002872 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 291112002873 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...; Region: Prolidase; cd01087 291112002874 active site 291112002875 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112002876 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 291112002877 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112002878 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 291112002879 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 291112002880 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 291112002881 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 L...; Region: GCS_H; cd06848 291112002882 lipoyl attachment site; other site 291112002883 glycine dehydrogenase; Provisional; Region: PRK05367 291112002884 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2...; Region: GDC-P; cd00613 291112002885 tetramer interface; other site 291112002886 pyridoxal 5'-phosphate binding site; other site 291112002887 catalytic residue; other site 291112002888 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2...; Region: GDC-P; cd00613 291112002889 tetramer interface; other site 291112002890 pyridoxal 5'-phosphate binding site; other site 291112002891 catalytic residue; other site 291112002892 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 291112002893 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 291112002894 Surface antigen; Region: Bac_surface_Ag; cl03097 291112002895 haemagglutination activity domain; Region: Haemagg_act; cl05436 291112002896 haemagglutination activity domain; Region: Haemagg_act; cl05436 291112002897 haemagglutination activity domain; Region: Haemagg_act; cl05436 291112002898 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 291112002899 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 291112002900 tetrameric interface; other site 291112002901 NAD binding site; other site 291112002902 catalytic residues; other site 291112002903 substrate binding site; other site 291112002904 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 291112002905 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 291112002906 Transcriptional regulators [Transcription]; Region: FadR; COG2186 291112002907 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 291112002908 DNA binding site 291112002909 FCD domain; Region: FCD; cl11656 291112002910 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 291112002911 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 291112002912 inhibitor-cofactor binding pocket; inhibition site 291112002913 pyridoxal 5'-phosphate binding site; other site 291112002914 catalytic residue; other site 291112002915 Protein of unknown function (DUF805); Region: DUF805; cl01224 291112002916 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112002917 FAD dependent oxidoreductase; Region: DAO; pfam01266 291112002918 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 291112002919 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112002920 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 291112002921 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 291112002922 S-adenosylmethionine binding site; other site 291112002923 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 291112002924 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 291112002925 pyridoxal 5'-phosphate binding pocket; other site 291112002926 catalytic residue; other site 291112002927 Chorismate mutase type II; Region: CM_2; cl00693 291112002928 oxo-acid-lyase/anthranilate synthase; Region: PLN02889 291112002929 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 291112002930 glutamine binding; other site 291112002931 catalytic triad; other site 291112002932 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 291112002933 chorismate binding enzyme; Region: Chorismate_bind; cl10555 291112002934 prephenate dehydrogenase; Provisional; Region: PRK08655 291112002935 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 291112002936 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112002937 putative substrate translocation pore; other site 291112002938 C-type lectin (CTL)/C-type lectin-like (CTLD) domain; Region: CLECT; cl02432 291112002939 ligand binding surface; other site 291112002940 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 291112002941 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 291112002942 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 291112002943 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 291112002944 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 291112002945 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 291112002946 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 291112002947 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 291112002948 active site 291112002949 Acyl transferase domain; Region: Acyl_transf_1; cl08282 291112002950 PKS_DH; Region: PKS_DH; smart00826 291112002951 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112002952 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112002953 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)...; Region: Trp-synth-beta_II; cl00342 291112002954 EamA-like transporter family; Region: EamA; cl01037 291112002955 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 291112002956 EamA-like transporter family; Region: EamA; cl01037 291112002957 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 291112002958 putative global regulator; Reviewed; Region: PRK09559 291112002959 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 291112002960 Protein of unknown function (DUF339); Region: Sdh5; cl01110 291112002961 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 291112002962 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 291112002963 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 291112002964 N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 291112002965 Int/Topo IB signature motif; other site 291112002966 active site 291112002967 thiol:disulfide interchange protein DsbC; Provisional; Region: PRK10877 291112002968 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...; Region: DsbA_DsbC_DsbG; cd03020 291112002969 dimerization domain; other site 291112002970 dimer interface; other site 291112002971 catalytic residues; other site 291112002972 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 291112002973 DHH family; Region: DHH; pfam01368 291112002974 DHHA1 domain; Region: DHHA1; pfam02272 291112002975 Uncharacterized conserved protein [Function unknown]; Region: COG4104 291112002976 PAAR motif; Region: PAAR_motif; pfam05488 291112002977 S-type Pyocin; Region: Pyocin_S; pfam06958 291112002978 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...; Region: HNHc; cl00083 291112002979 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 291112002980 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...; Region: HNHc; cl00083 291112002981 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 291112002982 peptide chain release factor 2; Provisional; Region: PRK08787 291112002983 RF-1 domain; Region: RF-1; cl02875 291112002984 RF-1 domain; Region: RF-1; cl02875 291112002985 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 291112002986 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-...; Region: LysRS_N; cd04322 291112002987 dimer interface; other site 291112002988 putative anticodon binding site; other site 291112002989 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 291112002990 motif 1; other site 291112002991 active site 291112002992 motif 2; other site 291112002993 motif 3; other site 291112002994 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 291112002995 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 291112002996 trimer interface; other site 291112002997 active site 291112002998 substrate binding site; other site 291112002999 CoA binding site; other site 291112003000 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 291112003001 FeS/SAM binding site; other site 291112003002 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 291112003003 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside...; Region: NK; cl11962 291112003004 active site 291112003005 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...; Region: Nudix_Hydrolase; cl00447 291112003006 nudix motif; other site 291112003007 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 291112003008 conserved cys residue; other site 291112003009 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 291112003010 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 291112003011 conserved cys residue; other site 291112003012 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 291112003013 propionate catabolism operon regulatory protein PrpR; Region: propionate_PrpR; TIGR02329 291112003014 Propionate catabolism activator; Region: PrpR_N; pfam06506 291112003015 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...; Region: AAA; cd00009 291112003016 Walker A motif; other site 291112003017 ATP binding site; other site 291112003018 Walker B motif; other site 291112003019 arginine finger; other site 291112003020 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 291112003021 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 291112003022 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 291112003023 tetramer interface; other site 291112003024 active site 291112003025 Mg2+/Mn2+ binding site; other site 291112003026 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 291112003027 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (...; Region: Ec2MCS_like_1; cd06117 291112003028 dimer interface; other site 291112003029 active site 291112003030 citrylCoA binding site; other site 291112003031 oxalacetate/citrate binding site; other site 291112003032 coenzyme A binding site; other site 291112003033 catalytic triad; other site 291112003034 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 291112003035 2-methylcitrate dehydratase; Region: prpD; TIGR02330 291112003036 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 291112003037 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 291112003038 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112003039 Glycosyl hydrolases family 43; Region: Glyco_hydro_43; cl09152 291112003040 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 291112003041 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 291112003042 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 291112003043 N-terminal plug; other site 291112003044 ligand-binding site; other site 291112003045 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 291112003046 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 291112003047 homodimer interface; other site 291112003048 substrate-cofactor binding pocket; other site 291112003049 pyridoxal 5'-phosphate binding site; other site 291112003050 catalytic residue; other site 291112003051 multidrug efflux protein; Reviewed; Region: PRK01766 291112003052 MatE; Region: MatE; pfam01554 291112003053 MatE; Region: MatE; pfam01554 291112003054 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 291112003055 tetratricopeptide repeat protein; Provisional; Region: PRK11788 291112003056 Protein of unknown function (DUF560); Region: DUF560; pfam04575 291112003057 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 291112003058 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...; Region: OM_channels; cl00284 291112003059 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 291112003060 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...; Region: OM_channels; cl00284 291112003061 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 291112003062 Gram-negative bacterial tonB protein; Region: TonB; cl10048 291112003063 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 291112003064 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 291112003065 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 291112003066 active site 291112003067 oxyanion hole; other site 291112003068 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 291112003069 catalytic triad; other site 291112003070 Autotransporter beta-domain; Region: Autotransporter; cl02365 291112003071 Protein of unknown function, DUF583; Region: DUF583; cl09137 291112003072 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 291112003073 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 291112003074 Fic/DOC family; Region: Fic; cl00960 291112003075 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 291112003076 putative substrate binding site; other site 291112003077 putative ATP binding site; other site 291112003078 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...; Region: PTS_IIB_glc; cd00212 291112003079 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 291112003080 active site turn 291112003081 phosphorylation site 291112003082 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 291112003083 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 291112003084 Glycosyl hydrolases family 43; Region: Glyco_hydro_43; cl09152 291112003085 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 291112003086 Phage polarity suppression protein (Psu); Region: Psu; pfam07455 291112003087 Phage polarity suppression protein (Psu); Region: Psu; pfam07455 291112003088 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 291112003089 Phage integrase family; Region: Phage_integrase; pfam00589 291112003090 Int/Topo IB signature motif; other site 291112003091 active site 291112003092 SmpB protein; Region: SmpB; cl00482 291112003093 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 291112003094 putative coenzyme Q binding site; other site 291112003095 Uncharacterized protein family (UPF0125); Region: UPF0125; cl01096 291112003096 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 291112003097 recombination and repair protein; Provisional; Region: PRK10869 291112003098 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 291112003099 Walker A/P-loop; other site 291112003100 ATP binding site; other site 291112003101 Q-loop/lid; other site 291112003102 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 291112003103 ABC transporter signature motif; other site 291112003104 Walker B; other site 291112003105 D-loop; other site 291112003106 H-loop/switch region; other site 291112003107 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 291112003108 ATP-NAD kinase; Region: NAD_kinase; pfam01513 291112003109 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 291112003110 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 291112003111 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 291112003112 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 291112003113 FeS/SAM binding site; other site 291112003114 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; cl09108 291112003115 phosphate binding site; other site 291112003116 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and...; Region: IPP_Isomerase; cd02885 291112003117 active site 291112003118 metal-binding site 291112003119 nudix motif; other site 291112003120 FAD binding domain; Region: FAD_binding_4; cl10516 291112003121 Rhomboid family; Region: Rhomboid; cl11446 291112003122 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 291112003123 putative ADP-binding pocket; other site 291112003124 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 291112003125 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 291112003126 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 291112003127 active site 291112003128 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 291112003129 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112003130 Walker A/P-loop; other site 291112003131 ATP binding site; other site 291112003132 Q-loop/lid; other site 291112003133 ABC transporter signature motif; other site 291112003134 Walker B; other site 291112003135 D-loop; other site 291112003136 H-loop/switch region; other site 291112003137 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 291112003138 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 291112003139 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 291112003140 ATP binding site; other site 291112003141 Mg++ binding site; other site 291112003142 motif III; other site 291112003143 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 291112003144 nucleotide binding region; other site 291112003145 ATP-binding site; other site 291112003146 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 291112003147 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 291112003148 S-adenosylmethionine binding site; other site 291112003149 L-aspartate oxidase; Provisional; Region: PRK09077 291112003150 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112003151 domain; Region: Succ_DH_flav_C; pfam02910 291112003152 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 291112003153 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 291112003154 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...; Region: Sigma70_r4; cd06171 291112003155 DNA binding residues 291112003156 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 291112003157 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 291112003158 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 291112003159 MucB/RseB family; Region: MucB_RseB; cl01145 291112003160 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 291112003161 GTP-binding protein LepA; Provisional; Region: PRK05433 291112003162 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 291112003163 G1 box; other site 291112003164 putative GEF interaction site; other site 291112003165 GTP/Mg2+ binding site; other site 291112003166 Switch I region; other site 291112003167 G2 box; other site 291112003168 G3 box; other site 291112003169 Switch II region; other site 291112003170 G4 box; other site 291112003171 G5 box; other site 291112003172 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-...; Region: lepA_II; cd03699 291112003173 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 291112003174 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 291112003175 signal peptidase I; Provisional; Region: PRK10861 291112003176 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 291112003177 Catalytic site; other site 291112003178 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 291112003179 Catalytic site; other site 291112003180 ribonuclease III; Reviewed; Region: rnc; PRK00102 291112003181 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 post-...; Region: RIBOc; cd00593 291112003182 dimerization interface; other site 291112003183 active site 291112003184 metal-binding site 291112003185 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...; Region: DSRM; cd00048 291112003186 dsRNA binding site; other site 291112003187 GTP-binding protein Era; Reviewed; Region: era; PRK00089 291112003188 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 291112003189 G1 box; other site 291112003190 GTP/Mg2+ binding site; other site 291112003191 Switch I region; other site 291112003192 G2 box; other site 291112003193 Switch II region; other site 291112003194 G3 box; other site 291112003195 G4 box; other site 291112003196 G5 box; other site 291112003197 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains...; Region: KH-I; cl00098 291112003198 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 291112003199 Recombination protein O N terminal; Region: RecO_N; pfam11967 291112003200 Recombination protein O C terminal; Region: RecO_C; pfam02565 291112003201 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 the...; Region: PNPsynthase; cd00003 291112003202 active site 291112003203 hydrophilic channel; other site 291112003204 dimerization interface; other site 291112003205 catalytic residues; other site 291112003206 active site lid 291112003207 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 291112003208 ferredoxin; Validated; Region: PRK07118 291112003209 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 291112003210 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 291112003211 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 291112003212 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 291112003213 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 291112003214 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 291112003215 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 291112003216 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 291112003217 nucleoside/Zn binding site; other site 291112003218 dimer interface; other site 291112003219 catalytic motif; other site 291112003220 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; cl09944 291112003221 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 291112003222 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 291112003223 pyridoxal 5'-phosphate binding pocket; other site 291112003224 catalytic residue; other site 291112003225 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 291112003226 putative transglycosylase; Provisional; Region: PRK10859 291112003227 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...; Region: PBPb; cd00134 291112003228 substrate binding pocket; other site 291112003229 membrane-bound complex binding site; other site 291112003230 hinge residues; other site 291112003231 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 catalyze...; Region: LT_GEWL; cd00254 291112003232 N-acetyl-D-glucosamine binding site; other site 291112003233 catalytic residue; other site 291112003234 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 291112003235 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 291112003236 dimerization interface; other site 291112003237 ATP binding site; other site 291112003238 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal...; Region: PurM-like; cl10019 291112003239 dimerization interface; other site 291112003240 ATP binding site; other site 291112003241 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 291112003242 putative active site; other site 291112003243 catalytic triad; other site 291112003244 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 trans...; Region: HisKA; cd00082 291112003245 dimer interface; other site 291112003246 phosphorylation site 291112003247 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 291112003248 ATP binding site; other site 291112003249 Mg2+ binding site; other site 291112003250 G-X-G motif; other site 291112003251 hypothetical protein; Provisional; Region: PRK10722 291112003252 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 291112003253 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 291112003254 active site 291112003255 phosphorylation site 291112003256 intermolecular recognition site; other site 291112003257 dimerization interface; other site 291112003258 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...; Region: AAA; cd00009 291112003259 Walker A motif; other site 291112003260 ATP binding site; other site 291112003261 Walker B motif; other site 291112003262 arginine finger; other site 291112003263 NAD synthetase; Provisional; Region: PRK13981 291112003264 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 291112003265 multimer interface; other site 291112003266 active site 291112003267 catalytic triad; other site 291112003268 protein interface 1; other site 291112003269 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...; Region: NAD_synthase; cd00553 291112003270 homodimer interface; other site 291112003271 NAD binding pocket; other site 291112003272 ATP binding pocket; other site 291112003273 Mg binding site; other site 291112003274 active-site loop 291112003275 Nitrogen regulatory protein P-II; Region: P-II; cl00412 291112003276 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112003277 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 291112003278 NAD(P) binding site; other site 291112003279 catalytic residues; other site 291112003280 Transposase DDE domain; Region: Transposase_11; pfam01609 291112003281 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112003282 Condensation domain; Region: Condensation; cl09290 291112003283 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 291112003284 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112003285 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112003286 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; cl12031 291112003287 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 291112003288 Condensation domain; Region: Condensation; cl09290 291112003289 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112003290 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112003291 RTX toxin acyltransferase family; Region: HlyC; cl01131 291112003292 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; cl00428 291112003293 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 291112003294 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 291112003295 putative active site; other site 291112003296 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 291112003297 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 291112003298 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 291112003299 Walker A/P-loop; other site 291112003300 ATP binding site; other site 291112003301 Q-loop/lid; other site 291112003302 ABC transporter signature motif; other site 291112003303 Walker B; other site 291112003304 D-loop; other site 291112003305 H-loop/switch region; other site 291112003306 Uncharacterized conserved protein [Function unknown]; Region: COG4104 291112003307 nitric oxide dioxygenase; Provisional; Region: PRK13289 291112003308 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 291112003309 heme-binding site; other site 291112003310 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 291112003311 FAD binding pocket; other site 291112003312 FAD binding motif; other site 291112003313 phosphate binding motif; other site 291112003314 beta-alpha-beta structure motif; other site 291112003315 NAD binding pocket; other site 291112003316 Heme binding pocket; other site 291112003317 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...; Region: SHMT; cd00378 291112003318 dimer interface; other site 291112003319 glycine-pyridoxal phosphate binding site; other site 291112003320 active site 291112003321 folate binding site; other site 291112003322 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128; cl11521 291112003323 phenyl proprionate permease family protein; Region: 2A0127; TIGR00902 291112003324 trehalose repressor; Provisional; Region: treR; PRK09492 291112003325 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 291112003326 DNA binding site 291112003327 domain linker motif; other site 291112003328 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 291112003329 dimerization interface; other site 291112003330 ligand binding site; other site 291112003331 trehalose(maltose)-specific PTS system components IIBC; Provisional; Region: PRK11007 291112003332 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...; Region: PTS_IIB_glc; cd00212 291112003333 active site turn 291112003334 phosphorylation site 291112003335 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 291112003336 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 291112003337 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 291112003338 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 291112003339 active site 291112003340 dimerization interface; other site 291112003341 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 291112003342 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 291112003343 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112003344 rrf2 family protein (putative transcriptional regulator); Region: rrf2_super; TIGR00738 291112003345 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 291112003346 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 291112003347 pyridoxal 5'-phosphate binding pocket; other site 291112003348 catalytic residue; other site 291112003349 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 291112003350 trimerization site; other site 291112003351 active site 291112003352 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 291112003353 co-chaperone HscB; Provisional; Region: hscB; PRK05014 291112003354 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...; Region: DnaJ; cl02542 291112003355 chaperone protein HscA; Provisional; Region: hscA; PRK05183 291112003356 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 291112003357 catalytic loop; other site 291112003358 iron binding site; other site 291112003359 Protein of unknown function (DUF528); Region: DUF528; cl01123 291112003360 aminopeptidase B; Provisional; Region: PRK05015 291112003361 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...; Region: Peptidase_M17; cd00433 291112003362 interface (dimer of trimers); other site 291112003363 Substrate-binding/catalytic site; other site 291112003364 Zn-binding sites; other site 291112003365 SseB protein; Region: SseB; cl06279 291112003366 cysteine synthases; Region: cysKM; TIGR01136 291112003367 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 291112003368 dimer interface; other site 291112003369 pyridoxal 5'-phosphate binding site; other site 291112003370 catalytic residue; other site 291112003371 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 291112003372 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 291112003373 LysE type translocator; Region: LysE; cl00565 291112003374 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 291112003375 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 291112003376 MG2 domain; Region: A2M_N; pfam01835 291112003377 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 291112003378 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 291112003379 surface patch; other site 291112003380 thioester region; other site 291112003381 specificity defining residues; other site 291112003382 penicillin-binding protein 1C; Provisional; Region: PRK11240 291112003383 Transglycosylase; Region: Transgly; cl07896 291112003384 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 291112003385 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 291112003386 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 291112003387 active site 291112003388 multimer interface; other site 291112003389 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 291112003390 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 291112003391 FeS/SAM binding site; other site 291112003392 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 291112003393 binding surface 291112003394 TPR motif; other site 291112003395 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 291112003396 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 291112003397 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 291112003398 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 291112003399 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 291112003400 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 ATP-dependent...; Region: HisRS-like_core; cd00773 291112003401 dimer interface; other site 291112003402 motif 1; other site 291112003403 active site 291112003404 motif 2; other site 291112003405 motif 3; other site 291112003406 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 291112003407 anticodon binding site; other site 291112003408 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 291112003409 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 291112003410 outer membrane protein assembly complex subunit YfgL; Provisional; Region: PRK11138 291112003411 Dehydrogenases with pyrrolo-quinoline quinone (PQQ) as cofactor, like ethanol, methanol, and membrane bound glucose dehydrogenases. The alignment model contains an 8-bladed beta-propeller; Region: PQQ_DH; cl11493 291112003412 Trp docking motif; other site 291112003413 GTP-binding protein EngA; Reviewed; Region: engA; PRK00093 291112003414 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 291112003415 G1 box; other site 291112003416 GTP/Mg2+ binding site; other site 291112003417 Switch I region; other site 291112003418 G2 box; other site 291112003419 Switch II region; other site 291112003420 G3 box; other site 291112003421 G4 box; other site 291112003422 G5 box; other site 291112003423 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 291112003424 G1 box; other site 291112003425 GTP/Mg2+ binding site; other site 291112003426 Switch I region; other site 291112003427 G2 box; other site 291112003428 G3 box; other site 291112003429 Switch II region; other site 291112003430 G4 box; other site 291112003431 G5 box; other site 291112003432 Thermolysin metallopeptidase, catalytic domain; Region: Peptidase_M4; pfam01447 291112003433 Thermolysin metallopeptidase, alpha-helical domain; Region: Peptidase_M4_C; pfam02868 291112003434 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 291112003435 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 291112003436 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 291112003437 Protein of unknown function (DUF1131); Region: DUF1131; cl05867 291112003438 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 291112003439 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...; Region: TM_PBP2; cd06261 291112003440 dimer interface; other site 291112003441 conserved gate region; other site 291112003442 putative PBP binding loops; other site 291112003443 ABC-ATPase subunit interface; other site 291112003444 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...; Region: TM_PBP2; cd06261 291112003445 dimer interface; other site 291112003446 conserved gate region; other site 291112003447 putative PBP binding loops; other site 291112003448 ABC-ATPase subunit interface; other site 291112003449 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 291112003450 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-...; Region: ABC_CysA_sulfate_importer; cd03296 291112003451 Walker A/P-loop; other site 291112003452 ATP binding site; other site 291112003453 Q-loop/lid; other site 291112003454 ABC transporter signature motif; other site 291112003455 Walker B; other site 291112003456 D-loop; other site 291112003457 H-loop/switch region; other site 291112003458 cysteine synthases; Region: cysKM; TIGR01136 291112003459 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 291112003460 dimer interface; other site 291112003461 pyridoxal 5'-phosphate binding site; other site 291112003462 catalytic residue; other site 291112003463 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_glc; cd00210 291112003464 HPr interaction site; other site 291112003465 glycerol kinase (GK) interaction site; other site 291112003466 active site 291112003467 phosphorylation site 291112003468 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 291112003469 PEP-utilising enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 291112003470 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 291112003471 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 291112003472 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 291112003473 dimerization domain swap beta strand; other site 291112003474 regulatory protein interface; other site 291112003475 active site 291112003476 regulatory phosphorylation site; other site 291112003477 cysteine synthases; Region: cysKM; TIGR01136 291112003478 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 291112003479 dimer interface; other site 291112003480 pyridoxal 5'-phosphate binding site; other site 291112003481 catalytic residue; other site 291112003482 Protein of unknown function (DUF540); Region: DUF540; cl01126 291112003483 cell division protein ZipA; Provisional; Region: PRK03427 291112003484 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cd00231 291112003485 FtsZ protein binding site; other site 291112003486 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 291112003487 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 291112003488 nucleotide binding pocket; other site 291112003489 K-X-D-G motif; other site 291112003490 catalytic site; other site 291112003491 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 291112003492 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 291112003493 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 291112003494 Dimer interface; other site 291112003495 BRCT sequence motif; other site 291112003496 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 291112003497 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 291112003498 Nucleoside recognition; Region: Gate; cl00486 291112003499 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 291112003500 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3530 291112003501 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 291112003502 catalytic core domain of descriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 291112003503 active site 291112003504 HIGH motif; other site 291112003505 catalytic core domain of descriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 291112003506 KMSKS motif; other site 291112003507 ROK family; Region: ROK; cl09121 291112003508 VacJ like lipoprotein; Region: VacJ; cl01073 291112003509 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 291112003510 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 291112003511 Protein of unknown function (DUF406); Region: DUF406; cl11449 291112003512 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 291112003513 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 291112003514 dimer interface; other site 291112003515 active site 291112003516 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 291112003517 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 291112003518 substrate binding site; other site 291112003519 oxyanion hole (OAH) forming residues; other site 291112003520 trimer interface; other site 291112003521 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112003522 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 291112003523 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 291112003524 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 291112003525 catalytic core; other site 291112003526 Smr domain; Region: Smr; cl02619 291112003527 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 291112003528 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 291112003529 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria...; Region: Imidazolone-5PH; cd01296 291112003530 active site 291112003531 Arginase family; Region: Arginase; cl00306 291112003532 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 291112003533 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 291112003534 DNA binding site 291112003535 UTRA domain; Region: UTRA; cl06649 291112003536 urocanate hydratase; Provisional; Region: PRK05414 291112003537 urocanate hydratase; Region: hutU; TIGR01228 291112003538 tyrosine 2,3-aminomutase; Region: Tyr_2_3_mutase; TIGR03832 291112003539 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 291112003540 active sites 291112003541 tetramer interface; other site 291112003542 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 291112003543 Amino acid permease; Region: AA_permease; pfam00324 291112003544 HemK family putative methylases; Region: hemK_fam; TIGR00536 291112003545 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 291112003546 S-adenosylmethionine binding site; other site 291112003547 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 291112003548 Tetramer interface; other site 291112003549 active site 291112003550 FMN-binding site; other site 291112003551 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 291112003552 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 291112003553 Protein of unknown function, DUF462; Region: DUF462; cl01190 291112003554 YfcL protein; Region: YfcL; pfam08891 291112003555 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 291112003556 RelB antitoxin; Region: RelB; cl01171 291112003557 5-methylaminomethyl-2-thiouridine methyltransferase; Reviewed; Region: mnmC; PRK01747 291112003558 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; cl12011 291112003559 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112003560 LysE type translocator; Region: LysE; cl00565 291112003561 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 291112003562 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112003563 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 291112003564 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 291112003565 dimer interface; other site 291112003566 active site 291112003567 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 291112003568 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 291112003569 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 291112003570 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 291112003571 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 291112003572 active site 291112003573 phosphorylation site 291112003574 intermolecular recognition site; other site 291112003575 dimerization interface; other site 291112003576 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...; Region: trans_reg_C; cd00383 291112003577 DNA binding site 291112003578 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 291112003579 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 trans-...; Region: HisKA; cd00082 291112003580 dimer interface; other site 291112003581 phosphorylation site 291112003582 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 291112003583 ATP binding site; other site 291112003584 Mg2+ binding site; other site 291112003585 G-X-G motif; other site 291112003586 EamA-like transporter family; Region: EamA; cl01037 291112003587 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 291112003588 EamA-like transporter family; Region: EamA; cl01037 291112003589 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 291112003590 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 291112003591 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112003592 Domain of unknown function (DUF3410); Region: DUF3410; pfam11890 291112003593 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 291112003594 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112003595 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 291112003596 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 291112003597 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1)...; Region: PseudoU_synth_EcTruA; cd02570 291112003598 dimerization interface 3.5A; other site 291112003599 active site 291112003600 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 291112003601 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 291112003602 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 291112003603 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 291112003604 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 291112003605 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 291112003606 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 291112003607 hypothetical protein; Provisional; Region: PRK11633 291112003608 Sporulation related domain; Region: SPOR; cl10051 291112003609 Colicin V production protein; Region: Colicin_V; cl00567 291112003610 amidophosphoribosyltransferase; Provisional; Region: PRK09246 291112003611 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 291112003612 active site 291112003613 tetramer interface; other site 291112003614 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 291112003615 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 291112003616 Flavoprotein; Region: Flavoprotein; cl08021 291112003617 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 291112003618 Domain of unknown function (DUF1731); Region: DUF1731; pfam08338 291112003619 glutathione S-transferase; Provisional; Region: PRK13972 291112003620 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...; Region: GST_N_Ure2p_like; cd03048 291112003621 C-terminal domain interface; other site 291112003622 GSH binding site (G-site); other site 291112003623 dimer interface; other site 291112003624 GST_C 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...; Region: GST_C_Ure2p_like; cd03178 291112003625 dimer interface; other site 291112003626 N-terminal domain interface; other site 291112003627 putative substrate binding pocket (H-site); other site 291112003628 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 291112003629 active site flap/lid 291112003630 nucleophilic elbow; other site 291112003631 catalytic triad; other site 291112003632 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_38; cd04697 291112003633 nudix motif; other site 291112003634 Protein of unknown function (DUF796); Region: DUF796; cl01226 291112003635 Protein of unknown function (DUF796); Region: DUF796; cl01226 291112003636 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 291112003637 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 291112003638 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs) found in bacteria and archaea. Catalysis of the enzymes proceeds via a Schiff-base mechanism like other class I aldolases, although this subfamily is clearly...; Region: DhnA; cd00958 291112003639 putative active site; other site 291112003640 catalytic residue; other site 291112003641 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 291112003642 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 291112003643 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 291112003644 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 291112003645 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 291112003646 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112003647 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112003648 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112003649 Condensation domain; Region: Condensation; cl09290 291112003650 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112003651 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112003652 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112003653 Condensation domain; Region: Condensation; cl09290 291112003654 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112003655 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112003656 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112003657 Thioesterase domain; Region: Thioesterase; pfam00975 291112003658 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; cl12031 291112003659 haemagglutination activity domain; Region: Haemagg_act; cl05436 291112003660 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 291112003661 Possible hemagglutinin (DUF638); Region: DUF638; pfam04829 291112003662 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 291112003663 Surface antigen; Region: Bac_surface_Ag; cl03097 291112003664 putative transposase OrfB; Reviewed; Region: PHA02517 291112003665 Integrase core domain; Region: rve; cl01316 291112003666 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 291112003667 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 291112003668 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112003669 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112003670 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112003671 Condensation domain; Region: Condensation; cl09290 291112003672 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112003673 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112003674 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112003675 Condensation domain; Region: Condensation; cl09290 291112003676 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112003677 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112003678 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112003679 Condensation domain; Region: Condensation; cl09290 291112003680 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112003681 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112003682 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112003683 Condensation domain; Region: Condensation; cl09290 291112003684 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112003685 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112003686 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112003687 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; cl12031 291112003688 Thioesterase domain; Region: Thioesterase; pfam00975 291112003689 hypothetical protein; Provisional; Region: PRK09956 291112003690 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 291112003691 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 291112003692 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 291112003693 inhibitor-cofactor binding pocket; inhibition site 291112003694 pyridoxal 5'-phosphate binding site; other site 291112003695 catalytic residue; other site 291112003696 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 291112003697 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 291112003698 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 291112003699 NAD(P) binding site; other site 291112003700 catalytic residues; other site 291112003701 Succinylarginine dihydrolase; Region: AstB; cl01511 291112003702 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 291112003703 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 291112003704 active site 291112003705 Zn-binding site; other site 291112003706 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 291112003707 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 291112003708 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 291112003709 YcfA-like protein; Region: YcfA; cl00752 291112003711 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...; Region: CAS_like; cl00184 291112003712 active site 291112003713 iron coordination sites; other site 291112003714 substrate binding pocket; other site 291112003715 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 291112003716 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 291112003717 phosphate acetyltransferase; Reviewed; Region: PRK05632 291112003718 DRTGG domain; Region: DRTGG; cl12147 291112003719 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 291112003720 acetate kinase; Reviewed; Region: PRK12440 291112003721 Acetokinase family; Region: Acetate_kinase; cl01029 291112003722 Protein of unknown function, DUF412; Region: DUF412; cl01183 291112003723 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 291112003724 transmembrane helices; other site 291112003725 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 291112003726 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; cl09110 291112003727 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; cl09110 291112003728 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 291112003729 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 291112003730 tyrosine aminotransferase, eukaryotic; Region: tyr_amTase_E; TIGR01264 291112003731 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 291112003732 pyridoxal 5'-phosphate binding site; other site 291112003733 homodimer interface; other site 291112003734 catalytic residue; other site 291112003735 Transcriptional regulator [Transcription]; Region: LysR; COG0583 291112003736 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112003737 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 291112003738 putative dimerization interface; other site 291112003739 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 291112003740 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 291112003741 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 291112003742 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl00539 291112003743 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 291112003744 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 291112003745 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...; Region: TRX_Fd_NuoE; cd03064 291112003746 putative dimer interface; other site 291112003747 [2Fe-2S] cluster binding site; other site 291112003748 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 291112003749 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 291112003750 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 291112003751 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 291112003752 NADH dehydrogenase subunit G; Validated; Region: PRK08166 291112003753 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 291112003754 catalytic loop; other site 291112003755 iron binding site; other site 291112003756 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 291112003757 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 291112003758 [4Fe-4S] binding site; other site 291112003759 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 291112003760 NADH dehydrogenase; Region: NADHdh; cl00469 291112003761 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 291112003762 4Fe-4S binding domain; Region: Fer4; pfam00037 291112003763 4Fe-4S binding domain; Region: Fer4; pfam00037 291112003764 NADH dehydrogenase subunit J; Provisional; Region: PRK06638 291112003765 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 291112003766 NADH dehydrogenase subunit L; Reviewed; Region: PRK06590 291112003767 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 291112003768 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 291112003769 NADH dehydrogenase subunit M; Reviewed; Region: PRK05846 291112003770 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 291112003771 NADH dehydrogenase subunit N; Provisional; Region: PRK05777 291112003772 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 291112003773 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 291112003774 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 291112003775 dimer interface; other site 291112003776 tetramer interface; other site 291112003777 PYR/PP interface; other site 291112003778 TPP binding site; other site 291112003779 TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key role in the menaquinone biosynthetic pathway, converting...; Region: TPP_SHCHC_synthase; cd02009 291112003780 TPP-binding site; other site 291112003781 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; cl12031 291112003782 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 291112003783 enoyl-CoA hydratase; Provisional; Region: PRK05980 291112003784 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 291112003785 substrate binding site; other site 291112003786 oxyanion hole (OAH) forming residues; other site 291112003787 trimer interface; other site 291112003788 O-succinylbenzoate synthase; Provisional; Region: PRK05105 291112003789 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway...; Region: OSBS; cd03320 291112003790 active site 291112003791 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112003792 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 291112003793 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 291112003794 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 291112003795 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 291112003796 tetramer interface; other site 291112003797 heme binding pocket; other site 291112003798 NADPH binding site; other site 291112003799 YfaZ precursor; Region: YfaZ; pfam07437 291112003800 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 291112003801 haemagglutination activity domain; Region: Haemagg_act; cl05436 291112003802 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 291112003803 Protein of unknown function (DUF1436); Region: DUF1436; pfam07262 291112003804 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112003805 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 291112003806 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 291112003807 catalytic loop; other site 291112003808 iron binding site; other site 291112003809 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 291112003810 dimer interface; other site 291112003811 putative radical transfer pathway; other site 291112003812 diiron center; other site 291112003813 tyrosyl radical; other site 291112003814 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 291112003815 ATP cone domain; Region: ATP-cone; pfam03477 291112003816 Class I ribonucleotide reductase; Region: RNR_I; cd01679 291112003817 active site 291112003818 dimer interface; other site 291112003819 catalytic residues; other site 291112003820 effector binding site; other site 291112003821 R2 peptide binding site; other site 291112003822 3-demethylubiquinone-9 3-methyltransferase; Provisional; Region: PRK05134 291112003823 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 291112003824 S-adenosylmethionine binding site; other site 291112003825 DNA gyrase subunit A; Validated; Region: PRK05560 291112003826 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 in...; Region: TOP4c; cd00187 291112003827 CAP-like domain; other site 291112003828 active site 291112003829 primary dimer interface; other site 291112003830 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 291112003831 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 291112003832 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 291112003833 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 291112003834 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 291112003835 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 291112003836 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 291112003837 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 trans-...; Region: HisKA; cd00082 291112003838 dimer interface; other site 291112003839 phosphorylation site 291112003840 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 291112003841 ATP binding site; other site 291112003842 Mg2+ binding site; other site 291112003843 G-X-G motif; other site 291112003844 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 291112003845 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 291112003846 active site 291112003847 phosphorylation site 291112003848 intermolecular recognition site; other site 291112003849 dimerization interface; other site 291112003850 transcriptional regulator RcsB; Provisional; Region: PRK10840 291112003851 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 291112003852 active site 291112003853 phosphorylation site 291112003854 intermolecular recognition site; other site 291112003855 dimerization interface; other site 291112003856 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...; Region: LuxR_C_like; cd06170 291112003857 DNA binding residues 291112003858 dimerization interface; other site 291112003859 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 291112003860 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 291112003861 ATP binding site; other site 291112003862 Mg2+ binding site; other site 291112003863 G-X-G motif; other site 291112003864 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 291112003865 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 291112003866 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 291112003867 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 291112003868 Protein of unknown function (DUF3277); Region: DUF3277; pfam11681 291112003869 virion protein; Provisional; Region: V; PHA02564 291112003870 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 291112003871 Baseplate J-like protein; Region: Baseplate_J; cl01294 291112003872 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 291112003873 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 291112003874 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 291112003875 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 291112003876 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 291112003877 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 291112003878 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 291112003879 putative active site; other site 291112003880 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 291112003881 Sulfatase; Region: Sulfatase; cl10460 291112003882 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; cl12011 291112003883 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 291112003884 Phage Tail Collar Domain; Region: Collar; pfam07484 291112003885 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 291112003886 non-specific DNA binding site; other site 291112003887 salt bridge; other site 291112003888 sequence-specific DNA binding site; other site 291112003889 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 291112003890 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 291112003891 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 291112003892 S-adenosylmethionine binding site; other site 291112003893 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 291112003894 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 291112003895 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 291112003896 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 291112003897 catalytic triad; other site 291112003898 CobD/Cbib protein; Region: CobD_Cbib; cl00561 291112003899 Precorrin-8X methylmutase; Region: CbiC; cl00913 291112003900 CbiD; Region: CbiD; cl00828 291112003901 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 291112003902 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 291112003903 S-adenosylmethionine binding site; other site 291112003904 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 291112003905 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 291112003906 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 291112003907 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 291112003908 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 291112003909 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 291112003910 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 291112003911 Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]; Region: CbiK; COG4822 291112003912 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 291112003913 active site 291112003914 C-terminal domain interface; other site 291112003915 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 291112003916 active site 291112003917 N-terminal domain interface; other site 291112003918 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 291112003919 cobyric acid synthase; Provisional; Region: PRK00784 291112003920 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 291112003921 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 291112003922 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 291112003923 catalytic triad; other site 291112003924 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is...; Region: CobU; cd00544 291112003925 homotrimer interface; other site 291112003926 Walker A motif; other site 291112003927 GTP binding site; other site 291112003928 Walker B motif; other site 291112003929 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 291112003930 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 291112003931 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 291112003932 catalytic core; other site 291112003933 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 291112003934 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 291112003935 putative dimer interface; other site 291112003936 active site pocket 291112003937 putative cataytic base; other site 291112003938 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 291112003939 Protein of unknown function (DUF796); Region: DUF796; cl01226 291112003940 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 291112003941 salt bridge; other site 291112003942 non-specific DNA binding site; other site 291112003943 sequence-specific DNA binding site; other site 291112003944 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 291112003945 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; cl09205 291112003946 reactivating factor for ethanolamine ammonia lyase; Provisional; Region: eutA; PRK10719 291112003947 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 291112003948 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 291112003949 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 291112003950 pyridoxal 5'-phosphate binding site; other site 291112003951 homodimer interface; other site 291112003952 catalytic residue; other site 291112003953 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 291112003954 precorrin-2 dehydrogenase; Validated; Region: PRK06719 291112003955 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 291112003956 Sirohaem synthase dimerization region; Region: CysG_dimerizer; pfam10414 291112003957 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...; Region: CobA_CobO_BtuR; cd00561 291112003958 homodimer interface; other site 291112003959 Walker A motif; other site 291112003960 ATP binding site; other site 291112003961 hydroxycobalamin binding site; other site 291112003962 Walker B motif; other site 291112003963 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 291112003964 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 291112003965 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 291112003966 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 291112003967 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 291112003968 Phage Tail Collar Domain; Region: Collar; pfam07484 291112003969 Phage Tail Collar Domain; Region: Collar; pfam07484 291112003970 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 291112003971 Phage Tail Collar Domain; Region: Collar; pfam07484 291112003972 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 291112003973 Phage Tail Collar Domain; Region: Collar; pfam07484 291112003974 Phage Tail Collar Domain; Region: Collar; pfam07484 291112003975 Integrase core domain; Region: rve; cl01316 291112003976 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 291112003977 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 291112003978 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 291112003979 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 291112003980 Sulfatase; Region: Sulfatase; cl10460 291112003981 Protein of unknown function (DUF1414); Region: DUF1414; cl01175 291112003982 37-kD nucleoid-associated bacterial protein; Region: NA37; cl01174 291112003983 Ribosomal_L25_TL5_CTC: Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain. L25 is a single-domain protein, homologous to the N-terminal domain of TL5 and CTC, which each contain two domains. CTC is a known stress protein, and proteins of this...; Region: Ribosomal_L25_TL5_CTC; cd00495 291112003984 5S rRNA interface; other site 291112003985 CTC domain interface; other site 291112003986 L16 interface; other site 291112003987 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 291112003988 ATP binding site; other site 291112003989 putative Mg++ binding site; other site 291112003990 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 291112003991 nucleotide binding region; other site 291112003992 ATP-binding site; other site 291112003993 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 291112003994 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 291112003995 RNA binding surface; other site 291112003996 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 291112003997 active site 291112003998 uracil binding; other site 291112003999 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 291112004000 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112004001 putative substrate translocation pore; other site 291112004002 hypothetical protein; Provisional; Region: PRK11835 291112004003 putative outer membrane lipoprotein; Provisional; Region: spr; PRK10838 291112004004 NlpC/P60 family; Region: NLPC_P60; cl11438 291112004005 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 291112004006 elongation factor P; Provisional; Region: PRK04542 291112004007 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 291112004008 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 291112004009 RNA binding site; other site 291112004010 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 291112004011 RNA binding site; other site 291112004012 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 291112004013 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 291112004014 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_19; cd04678 291112004015 nudix motif; other site 291112004016 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 291112004017 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 291112004018 putative substrate binding site; other site 291112004019 putative ATP binding site; other site 291112004020 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 D-arabino-6...; Region: AP2Ec; cd00019 291112004021 AP endonuclease family 2; Region: AP2Ec; smart00518 291112004022 AP (apurinic/apyrimidinic) site pocket; other site 291112004023 DNA interaction; other site 291112004024 Metal-binding active site; metal-binding site 291112004025 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 291112004026 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 291112004027 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112004028 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 291112004029 putative dimerization interface; other site 291112004030 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 291112004031 Amino acid permease; Region: AA_permease; pfam00324 291112004032 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 291112004033 Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_f; cd01139 291112004034 putative ligand binding residues; other site 291112004035 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 291112004036 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...; Region: TM_ABC_iron-siderophores_like; cd06550 291112004037 ABC-ATPase subunit interface; other site 291112004038 dimer interface; other site 291112004039 putative PBP binding regions; other site 291112004040 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 291112004041 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 291112004042 Walker A/P-loop; other site 291112004043 ATP binding site; other site 291112004044 Q-loop/lid; other site 291112004045 ABC transporter signature motif; other site 291112004046 Walker B; other site 291112004047 D-loop; other site 291112004048 H-loop/switch region; other site 291112004049 putative outer membrane receptor; Provisional; Region: PRK13513 291112004050 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 291112004051 N-terminal plug; other site 291112004052 ligand-binding site; other site 291112004053 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 291112004054 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 291112004055 D-lactate dehydrogenase; Provisional; Region: PRK11183 291112004056 FAD binding domain; Region: FAD_binding_4; cl10516 291112004057 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 291112004058 exonuclease I; Provisional; Region: sbcB; PRK11779 291112004059 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 291112004060 active site 291112004061 substrate binding site; other site 291112004062 catalytic site; other site 291112004063 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 291112004064 Protein of unknown function (DUF496); Region: DUF496; cl09955 291112004065 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112004066 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112004067 ribonuclease E; Reviewed; Region: rne; PRK10811 291112004068 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 291112004069 homodimer interface; other site 291112004070 oligonucleotide binding site; other site 291112004071 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 291112004072 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 291112004073 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 291112004074 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 291112004075 active site 291112004076 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 291112004077 active site 291112004078 dimer interface; other site 291112004079 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 291112004080 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 291112004081 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 291112004082 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 291112004083 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 291112004084 dimer interface; other site 291112004085 active site 291112004086 CoA binding pocket; other site 291112004087 Acyl transferase domain; Region: Acyl_transf_1; cl08282 291112004088 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 291112004089 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112004090 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 291112004091 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112004092 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 291112004093 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 291112004094 dimer interface; other site 291112004095 active site 291112004096 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 291112004097 Aminotransferase class IV; Region: Aminotran_4; pfam01063 291112004098 pyridoxal 5'-phosphate binding site; other site 291112004099 catalytic residue; other site 291112004100 YceG-like family; Region: YceG; pfam02618 291112004101 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 291112004102 dimerization interface; other site 291112004103 thymidylate kinase; Validated; Region: tmk; PRK00698 291112004104 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...; Region: TMPK; cd01672 291112004105 TMP-binding site; other site 291112004106 ATP-binding site; other site 291112004107 DNA polymerase III subunit delta'; Validated; Region: PRK07993 291112004108 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112004109 C terminal; Region: DNApol3-delta_C; pfam09115 291112004110 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 291112004111 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 291112004112 active site 291112004113 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 291112004114 nucleotide binding site/active site; other site 291112004115 HIT family signature motif; other site 291112004116 catalytic residue; other site 291112004117 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; cl01354 291112004118 Choline Kinase (ChoK). The ChoK 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), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 291112004119 Phosphotransferase enzyme family; Region: APH; pfam01636 291112004120 active site 291112004121 ATP binding site; other site 291112004122 substrate binding site; other site 291112004123 dimer interface; other site 291112004124 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 291112004125 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 291112004126 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112004127 Peptidase S8 family domain, uncharacterized subfamily 11; Region: Peptidases_S8_11; cd04843 291112004128 putative active site; other site 291112004129 putative catalytic triad; other site 291112004130 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 291112004131 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 291112004132 Coenzyme A binding pocket; other site 291112004133 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 291112004134 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...; Region: CAS_like; cl00184 291112004135 substrate binding pocket; other site 291112004136 active site 291112004137 iron coordination sites; other site 291112004138 Pyoverdine/dityrosine biosynthesis protein [Secondary metabolites biosynthesis, transport, and catabolism]; Region: DIT1; COG3207 291112004139 Pyoverdine/dityrosine biosynthesis protein; Region: DIT1_PvcA; pfam05141 291112004140 transcription-repair coupling factor; Provisional; Region: PRK10689 291112004141 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 291112004142 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 291112004143 ATP binding site; other site 291112004144 putative Mg++ binding site; other site 291112004145 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 291112004146 nucleotide binding region; other site 291112004147 ATP-binding site; other site 291112004148 TRCF domain; Region: TRCF; pfam03461 291112004149 Predicted permease; Region: FtsX; cl11418 291112004150 LolC/E family; Region: lolCE; TIGR02212 291112004151 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 291112004152 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 291112004153 Walker A/P-loop; other site 291112004154 ATP binding site; other site 291112004155 Q-loop/lid; other site 291112004156 ABC transporter signature motif; other site 291112004157 Walker B; other site 291112004158 D-loop; other site 291112004159 H-loop/switch region; other site 291112004160 Predicted permease; Region: FtsX; cl11418 291112004161 LolC/E family; Region: lolCE; TIGR02212 291112004162 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...; Region: SIRT5_Af1_CobB; cd01412 291112004163 NAD-dependent deacetylase; Provisional; Region: PRK14138 291112004164 NAD+ binding site; other site 291112004165 substrate binding site; other site 291112004166 Zn binding site; other site 291112004167 Peptidase dimerization domain; Region: M20_dimer; cl09126 291112004168 peptidase T; Region: peptidase-T; TIGR01882 291112004169 Uncharacterized conserved protein [Function unknown]; Region: COG2850 291112004170 Cupin superfamily protein; Region: Cupin_4; pfam08007 291112004171 sensor protein PhoQ; Provisional; Region: PRK10815 291112004172 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 291112004173 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 trans-...; Region: HisKA; cl00080 291112004174 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 291112004175 ATP binding site; other site 291112004176 Mg2+ binding site; other site 291112004177 G-X-G motif; other site 291112004178 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 291112004179 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 291112004180 active site 291112004181 phosphorylation site 291112004182 intermolecular recognition site; other site 291112004183 dimerization interface; other site 291112004184 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...; Region: trans_reg_C; cd00383 291112004185 DNA binding site 291112004186 adenylosuccinate lyase; Provisional; Region: PRK09285 291112004187 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 291112004188 tetramer interface; other site 291112004189 active site 291112004190 Protein of unknown function (DUF489); Region: DUF489; cl01097 291112004191 tRNA-specific 2-thiouridylase MnmA; Reviewed; Region: mnmA; PRK00143 291112004192 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 291112004193 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X...; Region: Nudix_Hydrolase_2; cd03675 291112004194 nudix motif; other site 291112004195 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 291112004196 pseudouridine synthase; Region: TIGR00093 291112004197 active site 291112004198 isocitrate dehydrogenase; Validated; Region: PRK07362 291112004199 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 291112004200 Hemagglutinin; Region: Hemagglutinin; pfam00509 291112004201 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 291112004202 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 291112004203 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 291112004204 amidase catalytic site; other site 291112004205 Zn binding residues; other site 291112004206 substrate binding site; other site 291112004207 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 291112004208 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 291112004209 hypothetical protein; Provisional; Region: PRK11689 291112004210 sugar phosphatase; Provisional; Region: PRK10513 291112004211 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 291112004212 active site 291112004213 motif I; other site 291112004214 motif II; other site 291112004215 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; cl11391 291112004216 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 291112004217 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 291112004218 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 291112004219 Antimicrobial peptide resistance and lipid A acylation protein PagP; Region: PagP; cl06181 291112004220 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 protein...; Region: CSP_CDS; cd04458 291112004221 DNA binding site 291112004222 RNA-binding motif; other site 291112004223 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 291112004224 substrate binding site; other site 291112004225 dimer interface; other site 291112004226 ATP binding site; other site 291112004227 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 291112004228 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs) found in bacteria and archaea. Catalysis of the enzymes proceeds via a Schiff-base mechanism like other class I aldolases, although this subfamily is clearly...; Region: DhnA; cd00958 291112004229 putative active site; other site 291112004230 catalytic residue; other site 291112004231 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 291112004232 Peptidase family U32; Region: Peptidase_U32; pfam01136 291112004233 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 291112004234 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 291112004235 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 291112004236 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 291112004237 active site 291112004238 phosphorylation site 291112004239 intermolecular recognition site; other site 291112004240 dimerization interface; other site 291112004241 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...; Region: trans_reg_C; cd00383 291112004242 DNA binding site 291112004243 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 291112004244 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 connected by an extended linker. The...; Region: HAMP; cd06225 291112004245 dimerization interface; other site 291112004246 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 trans-...; Region: HisKA; cd00082 291112004247 dimer interface; other site 291112004248 phosphorylation site 291112004249 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 291112004250 ATP binding site; other site 291112004251 Mg2+ binding site; other site 291112004252 G-X-G motif; other site 291112004253 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 291112004254 Protein export membrane protein; Region: SecD_SecF; cl14618 291112004255 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 291112004256 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 291112004257 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 291112004258 Integrase core domain; Region: rve; cl01316 291112004259 nuc_hydro_CeIAG: Nucleoside hydrolases similar to the inosine-adenosine-guanosine-preferring nucleoside hydrolase from Caenorhabditis elegans. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base...; Region: nuc_hydro_CeIAG; cd02649 291112004260 active site 291112004261 Inosine-uridine preferring nucleoside hydrolase; Region: IU_nuc_hydro; pfam01156 291112004262 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...; Region: metallo-dependent_hydrolases; cl00281 291112004263 active site 291112004264 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...; Region: metallo-dependent_hydrolases; cl00281 291112004265 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 291112004266 ligand binding site; other site 291112004267 Protein of unknown function (DUF2633); Region: DUF2633; pfam11119 291112004268 exopolyphosphatase; Provisional; Region: PRK10854 291112004269 exopolyphosphatase; Region: exo_poly_only; TIGR03706 291112004270 polyphosphate kinase; Provisional; Region: PRK05443 291112004271 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 291112004272 active site 291112004273 signature motif; other site 291112004274 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 291112004275 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 291112004276 Formyl transferase; Region: Formyl_trans_N; cl00395 291112004277 phosphoribosylglycinamide formyltransferase, formyltetrahydrofolate-dependent; Region: PurN; TIGR00639 291112004278 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 291112004279 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...; Region: PurM; cd02196 291112004280 dimerization interface; other site 291112004281 putative ATP binding site; other site 291112004282 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 291112004283 Permease family; Region: Xan_ur_permease; cl00967 291112004284 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 291112004285 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 291112004286 NAD binding site; other site 291112004287 sugar binding site; other site 291112004288 divalent metal binding site; other site 291112004289 tetramer (dimer of dimers) interface; other site 291112004290 dimer interface; other site 291112004291 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 291112004292 methionine cluster; other site 291112004293 active site 291112004294 phosphorylation site 291112004295 metal-binding site 291112004296 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 291112004297 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N,N...; Region: PTS_IIB_chitobiose_lichenan; cd05564 291112004298 active site 291112004299 P-loop; other site 291112004300 phosphorylation site 291112004301 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112004302 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 291112004303 catalytic residues; other site 291112004304 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 291112004305 Peptidase family M48; Region: Peptidase_M48; cl12018 291112004306 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 291112004307 TPR motif; other site 291112004308 binding surface 291112004309 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 291112004310 Domain of unknown function DUF20; Region: UPF0118; cl00465 291112004311 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...; Region: PRX_BCP; cd03017 291112004312 catalytic triad; other site 291112004313 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 291112004314 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 291112004315 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 291112004316 Dihydrodipicolinate synthase (DHDPS) is a key enzyme in lysine biosynthesis. It catalyzes the aldol condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a lysine residue...; Region: DHDPS; cd00950 291112004317 dihydrodipicolinate synthase; Region: dapA; TIGR00674 291112004318 dimer interface; other site 291112004319 active site 291112004320 catalytic residue; other site 291112004321 lipoprotein; Provisional; Region: PRK11679 291112004322 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 291112004323 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 291112004324 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 291112004325 ATP binding site; other site 291112004326 active site 291112004327 substrate binding site; other site 291112004328 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 291112004329 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112004330 Walker A/P-loop; other site 291112004331 ATP binding site; other site 291112004332 Q-loop/lid; other site 291112004333 ABC transporter signature motif; other site 291112004334 Walker B; other site 291112004335 D-loop; other site 291112004336 H-loop/switch region; other site 291112004337 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 291112004338 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 291112004339 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112004340 Walker A/P-loop; other site 291112004341 ATP binding site; other site 291112004342 Q-loop/lid; other site 291112004343 ABC transporter signature motif; other site 291112004344 Walker B; other site 291112004345 D-loop; other site 291112004346 H-loop/switch region; other site 291112004347 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 291112004348 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; cl12031 291112004349 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112004350 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 291112004351 Predicted permease; Region: FtsX; cl11418 291112004352 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 291112004353 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 291112004354 Walker A/P-loop; other site 291112004355 ATP binding site; other site 291112004356 Q-loop/lid; other site 291112004357 ABC transporter signature motif; other site 291112004358 Walker B; other site 291112004359 D-loop; other site 291112004360 H-loop/switch region; other site 291112004361 macrolide transporter subunit MacA; Provisional; Region: PRK11578 291112004362 Condensation domain; Region: Condensation; cl09290 291112004363 AMP-binding enzyme; Region: AMP-binding; pfam00501 291112004364 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112004365 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112004366 Condensation domain; Region: Condensation; cl09290 291112004367 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 291112004368 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 291112004369 FeS/SAM binding site; other site 291112004370 Protein of unknown function (DUF441); Region: DUF441; cl01041 291112004371 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 291112004372 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 291112004373 Putative ATPase (DUF699); Region: DUF699; pfam05127 291112004374 The ligand binding domain of nuclear receptors, a family of ligand-activated transcription regulators; Region: NR_LBD; cl11397 291112004375 ligand binding site; other site 291112004376 coregulator recognition site; other site 291112004377 hypothetical protein; Provisional; Region: PRK13664 291112004378 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 291112004379 Peptidase dimerization domain; Region: M20_dimer; cl09126 291112004380 succinyl-diaminopimelate desuccinylase, proteobacterial clade; Region: dapE_proteo; TIGR01246 291112004381 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 291112004382 putative catalytic residues; other site 291112004383 transcriptional regulator NarP; Provisional; Region: PRK10403 291112004384 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 291112004385 active site 291112004386 phosphorylation site 291112004387 intermolecular recognition site; other site 291112004388 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...; Region: LuxR_C_like; cd06170 291112004389 DNA binding residues 291112004390 dimerization interface; other site 291112004391 malic enzyme; Reviewed; Region: PRK07232 291112004392 Malic enzyme, N-terminal domain; Region: malic; pfam00390 291112004393 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 291112004394 putative NAD(P) binding site; other site 291112004395 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 291112004396 Protein of unknown function, DUF399; Region: DUF399; cl01139 291112004397 Gram-negative bacterial tonB protein; Region: TonB; cl10048 291112004398 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 291112004399 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; cl12031 291112004400 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 291112004401 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 291112004402 N-terminal plug; other site 291112004403 ligand-binding site; other site 291112004404 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 291112004405 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 single-strand-...; Region: ExoVII_LU_OBF; cd04489 291112004406 generic binding surface II; other site 291112004407 generic binding surface I; other site 291112004408 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 291112004409 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; cl09108 291112004410 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 key...; Region: CBS_pair_IMPDH; cd04601 291112004411 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 the...; Region: IMPDH; cd00381 291112004412 active site 291112004413 GMP synthase; Reviewed; Region: guaA; PRK00074 291112004414 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 291112004415 AMP/PPi binding site; other site 291112004416 candidate oxyanion hole; other site 291112004417 catalytic triad; other site 291112004418 potential glutamine specificity residues; other site 291112004419 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 291112004420 ATP Binding subdomain; other site 291112004421 Ligand Binding sites; other site 291112004422 Dimerization subdomain; other site 291112004423 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 291112004424 Predicted membrane protein (DUF2335); Region: DUF2335; cl02210 291112004425 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 291112004426 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; cl12011 291112004427 hypothetical protein; Provisional; Region: PRK11469 291112004428 Domain of unknown function DUF; Region: DUF204; pfam02659 291112004429 Domain of unknown function DUF; Region: DUF204; pfam02659 291112004430 Protein of unknown function (DUF986); Region: DUF986; cl01983 291112004431 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 291112004432 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 291112004433 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...; Region: PTS_IIA_man; cd00006 291112004434 active pocket/dimerization site; other site 291112004435 active site 291112004436 phosphorylation site 291112004437 Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four...; Region: PTS_IIB_man; cd00001 291112004438 active site 291112004439 phosphorylation site 291112004440 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 291112004441 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 291112004442 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 291112004443 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 291112004444 putative active site; other site 291112004445 putative CoA binding site; other site 291112004446 nudix motif; other site 291112004447 metal-binding site 291112004448 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 291112004449 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 291112004450 chorismate binding enzyme; Region: Chorismate_bind; cl10555 291112004451 Uncharacterized protein family (UPF0181); Region: UPF0181; cl11477 291112004452 hypothetical protein; Provisional; Region: PRK13680 291112004453 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 291112004454 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; cl12031 291112004455 DNA polymerase III, theta subunit; Region: DNA_pol3_theta; cl11635 291112004456 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 291112004457 Ferritin-like domain; Region: Ferritin; pfam00210 291112004458 ferroxidase diiron center; other site 291112004459 Copper resistance protein CopC; Region: CopC; cl01012 291112004460 Copper resistance protein D; Region: CopD; cl00563 291112004461 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 291112004462 Protein of unknown function (DUF1480); Region: DUF1480; pfam07351 291112004463 GAF domain; Region: GAF; cl00853 291112004464 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl00174 291112004465 putative RNA binding sites; other site 291112004466 carboxy-terminal protease; Provisional; Region: PRK11186 291112004467 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 291112004468 protein binding site; other site 291112004469 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 291112004470 Catalytic dyad; other site 291112004471 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 291112004472 Peptidase family M48; Region: Peptidase_M48; cl12018 291112004473 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 291112004474 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 291112004475 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 291112004476 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...; Region: TM_ABC_iron-siderophores_like; cd06550 291112004477 ABC-ATPase subunit interface; other site 291112004478 dimer interface; other site 291112004479 putative PBP binding regions; other site 291112004480 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...; Region: TM_ABC_iron-siderophores_like; cd06550 291112004481 ABC-ATPase subunit interface; other site 291112004482 dimer interface; other site 291112004483 putative PBP binding regions; other site 291112004484 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 291112004485 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron...; Region: ABC_Metallic_Cations; cd03235 291112004486 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 291112004487 metal-binding site 291112004488 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 catalyze...; Region: LT_GEWL; cd00254 291112004489 N-acetyl-D-glucosamine binding site; other site 291112004490 catalytic residue; other site 291112004491 threonyl-tRNA synthetase; Validated; Region: PRK03772 291112004492 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...; Region: TGS_ThrRS_N; cd01667 291112004493 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 291112004494 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 291112004495 active site 291112004496 dimer interface; other site 291112004497 motif 1; other site 291112004498 motif 2; other site 291112004499 motif 3; other site 291112004500 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 291112004501 anticodon binding site; other site 291112004502 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 291112004503 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 291112004504 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 291112004505 Ribosomal protein L20; Region: Ribosomal_L20; cl00393 291112004506 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 291112004507 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 291112004508 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 291112004509 dimer interface; other site 291112004510 motif 1; other site 291112004511 active site 291112004512 motif 2; other site 291112004513 motif 3; other site 291112004514 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 291112004515 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 291112004516 putative tRNA-binding site; other site 291112004517 B3/4 domain; Region: B3_4; cl11458 291112004518 tRNA synthetase B5 domain; Region: B5; cl08394 291112004519 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 291112004520 dimer interface; other site 291112004521 motif 1; other site 291112004522 motif 3; other site 291112004523 motif 2; other site 291112004524 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 291112004525 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 higher...; Region: HU_IHF; cd00591 291112004526 IHF dimer interface; other site 291112004527 IHF - DNA interface; other site 291112004528 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...; Region: TM_ABC_iron-siderophores_like; cd06550 291112004529 ABC-ATPase subunit interface; other site 291112004530 dimer interface; other site 291112004531 putative PBP binding regions; other site 291112004532 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 291112004533 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 291112004534 Walker A/P-loop; other site 291112004535 ATP binding site; other site 291112004536 Q-loop/lid; other site 291112004537 ABC transporter signature motif; other site 291112004538 Walker B; other site 291112004539 D-loop; other site 291112004540 H-loop/switch region; other site 291112004541 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 291112004542 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 291112004543 inhibitor-cofactor binding pocket; inhibition site 291112004544 pyridoxal 5'-phosphate binding site; other site 291112004545 catalytic residue; other site 291112004546 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 291112004547 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 291112004548 Ligand binding site; other site 291112004549 Putative Catalytic site; other site 291112004550 DXD motif; other site 291112004551 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 291112004552 Formyl transferase; Region: Formyl_trans_N; cl00395 291112004553 Formyl transferase, C-terminal domain; Region: Formyl_trans_C; pfam02911 291112004554 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 291112004555 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 291112004556 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 291112004557 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 291112004558 hypothetical protein; Provisional; Region: PRK02971 291112004559 hypothetical protein; Provisional; Region: PRK02971 291112004560 NlpC/P60 family; Region: NLPC_P60; cl11438 291112004561 Flagellar protein FlhE; Region: FlhE; pfam06366 291112004562 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 291112004563 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 291112004564 Walker A/P-loop; other site 291112004565 ATP binding site; other site 291112004566 Q-loop/lid; other site 291112004567 ABC transporter signature motif; other site 291112004568 Walker B; other site 291112004569 D-loop; other site 291112004570 H-loop/switch region; other site 291112004571 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 291112004572 Predicted permease; Region: FtsX; cl11418 291112004573 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 291112004574 Outer membrane efflux protein; Region: OEP; pfam02321 291112004575 Outer membrane efflux protein; Region: OEP; pfam02321 291112004576 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 291112004577 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...; Region: Biotinyl_lipoyl_domains; cl11404 291112004578 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 291112004579 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 291112004580 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 291112004581 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 291112004582 Walker A/P-loop; other site 291112004583 ATP binding site; other site 291112004584 Q-loop/lid; other site 291112004585 ABC transporter signature motif; other site 291112004586 Walker B; other site 291112004587 D-loop; other site 291112004588 H-loop/switch region; other site 291112004589 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 291112004590 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...; Region: TM_ABC_iron-siderophores_like; cd06550 291112004591 ABC-ATPase subunit interface; other site 291112004592 dimer interface; other site 291112004593 putative PBP binding regions; other site 291112004594 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 291112004595 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 291112004596 putative hemin binding site; other site 291112004597 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 291112004598 ChuX-like family; Region: DUF1008; cl01509 291112004599 ChuX-like family; Region: DUF1008; cl01509 291112004600 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 291112004601 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 291112004602 N-terminal plug; other site 291112004603 ligand-binding site; other site 291112004604 NeuB family; Region: NeuB; cl00496 291112004605 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 291112004606 Domain of unknown function (DUF299); Region: DUF299; cl00780 291112004607 phosphoenolpyruvate synthase; Validated; Region: PRK06464 291112004608 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 291112004609 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 291112004610 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 291112004611 Domain of unknown function DUF20; Region: UPF0118; cl00465 291112004612 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 291112004613 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 291112004614 FAD binding domain; Region: FAD_binding_4; cl10516 291112004615 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 291112004616 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 291112004617 CoenzymeA binding site; other site 291112004618 subunit interaction site; other site 291112004619 PHB binding site; other site 291112004620 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 291112004621 Integrase core domain; Region: rve; cl01316 291112004622 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 291112004623 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 291112004624 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 291112004625 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 291112004626 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 291112004627 Walker A/P-loop; other site 291112004628 ATP binding site; other site 291112004629 Q-loop/lid; other site 291112004630 ABC transporter signature motif; other site 291112004631 Walker B; other site 291112004632 D-loop; other site 291112004633 H-loop/switch region; other site 291112004634 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 291112004635 FeS assembly protein SufD, group 1; Region: sufD; TIGR01981 291112004636 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 291112004637 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 291112004638 pyridoxal 5'-phosphate binding pocket; other site 291112004639 catalytic residue; other site 291112004640 Fe-S metabolism associated domain; Region: SufE; cl00951 291112004641 hypothetical protein; Provisional; Region: PRK10190 291112004642 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 291112004643 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 291112004644 enoyl-CoA hydratase; Provisional; Region: PRK06142 291112004645 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 291112004646 substrate binding site; other site 291112004647 oxyanion hole (OAH) forming residues; other site 291112004648 trimer interface; other site 291112004649 putative transposase OrfB; Reviewed; Region: PHA02517 291112004650 Integrase core domain; Region: rve; cl01316 291112004651 Enterobacterial virulence protein IpgD; Region: IpgD; pfam05925 291112004652 pyruvate kinase; Provisional; Region: PRK09206 291112004653 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 291112004654 domain interfaces; other site 291112004655 active site 291112004656 multidrug efflux protein; Reviewed; Region: PRK01766 291112004657 MatE; Region: MatE; pfam01554 291112004658 MatE; Region: MatE; pfam01554 291112004659 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 291112004660 Lumazine binding domain; Region: Lum_binding; pfam00677 291112004661 Lumazine binding domain; Region: Lum_binding; pfam00677 291112004662 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 291112004663 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 291112004664 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; cl12011 291112004665 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 291112004666 S-adenosylmethionine binding site; other site 291112004667 inner membrane transport protein YdhC; Provisional; Region: PRK11043 291112004668 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112004669 putative substrate translocation pore; other site 291112004670 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 291112004671 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112004672 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 291112004673 dimerization interface; other site 291112004674 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 291112004675 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 291112004676 DNA binding site 291112004677 domain linker motif; other site 291112004678 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 291112004679 dimerization interface; other site 291112004680 ligand binding site; other site 291112004681 superoxide dismutase; Provisional; Region: PRK10543 291112004682 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 291112004683 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 291112004684 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 291112004685 putative GSH binding site; other site 291112004686 catalytic residues; other site 291112004687 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 291112004688 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 291112004689 dimer interface; other site 291112004690 putative active site; other site 291112004691 putative substrate binding site; other site 291112004692 catalytic site; other site 291112004693 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 291112004694 dimer interface; other site 291112004695 active site 291112004696 metal-binding site 291112004697 glutathione binding site; other site 291112004698 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 291112004699 transcriptional regulator SlyA; Provisional; Region: PRK03573 291112004700 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112004701 Rickettsia 17 kDa surface antigen; Region: Rick_17kDa_Anti; cl10470 291112004702 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 291112004703 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 291112004704 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 291112004705 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 291112004706 Pyridoxine 5'-phosphate oxidase C-terminal dimerization region; Region: PNPOx_C; pfam10590 291112004707 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 291112004708 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 291112004709 active site 291112004710 HIGH motif; other site 291112004711 dimer interface; other site 291112004712 KMSKS motif; other site 291112004713 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 291112004714 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 291112004715 dimer interface; other site 291112004716 pyridoxal binding site; other site 291112004717 ATP binding site; other site 291112004718 glutathionine S-transferase; Provisional; Region: PRK10542 291112004719 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 291112004720 C-terminal domain interface; other site 291112004721 GSH binding site (G-site); other site 291112004722 dimer interface; other site 291112004723 GST_C 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_C_Beta; cd03188 291112004724 dimer interface; other site 291112004725 N-terminal domain interface; other site 291112004726 substrate binding pocket (H-site); other site 291112004727 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112004728 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 291112004729 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 291112004730 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 291112004731 Walker A/P-loop; other site 291112004732 ATP binding site; other site 291112004733 Q-loop/lid; other site 291112004734 ABC transporter signature motif; other site 291112004735 Walker B; other site 291112004736 D-loop; other site 291112004737 H-loop/switch region; other site 291112004738 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 291112004739 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 291112004740 Walker A/P-loop; other site 291112004741 ATP binding site; other site 291112004742 Q-loop/lid; other site 291112004743 ABC transporter signature motif; other site 291112004744 Walker B; other site 291112004745 D-loop; other site 291112004746 H-loop/switch region; other site 291112004747 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 291112004748 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...; Region: TM_PBP2; cd06261 291112004749 dimer interface; other site 291112004750 conserved gate region; other site 291112004751 putative PBP binding loops; other site 291112004752 ABC-ATPase subunit interface; other site 291112004753 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...; Region: TM_PBP2; cd06261 291112004754 dimer interface; other site 291112004755 conserved gate region; other site 291112004756 putative PBP binding loops; other site 291112004757 ABC-ATPase subunit interface; other site 291112004758 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 291112004759 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 291112004760 peptide binding site; other site 291112004761 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 291112004762 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...; Region: AAA; cd00009 291112004763 Walker A motif; other site 291112004764 ATP binding site; other site 291112004765 Walker B motif; other site 291112004766 arginine finger; other site 291112004767 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 291112004768 phage shock protein PspA; Provisional; Region: PRK10698 291112004769 phage shock protein A; Region: phageshock_pspA; TIGR02977 291112004770 Phage shock protein B; Region: PspB; cl05946 291112004771 PspC domain; Region: PspC; cl00864 291112004772 phage shock protein C; Region: phageshock_pspC; TIGR02978 291112004773 YcjX-like family, DUF463; Region: DUF463; cl01193 291112004774 hypothetical protein; Provisional; Region: PRK05415 291112004775 Domain of unknown function (DUF697); Region: DUF697; cl12064 291112004776 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 291112004777 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 291112004778 putative aromatic amino acid binding site; other site 291112004779 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 291112004780 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...; Region: AAA; cd00009 291112004781 Walker A motif; other site 291112004782 ATP binding site; other site 291112004783 Walker B motif; other site 291112004784 arginine finger; other site 291112004785 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 291112004786 dimer interface; other site 291112004787 catalytic triad; other site 291112004788 peroxidatic and resolving cysteines; other site 291112004789 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 291112004790 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 291112004791 peptide binding site; other site 291112004792 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 291112004793 CorA-like Mg2+ transporter protein; Region: CorA; cl00459 291112004794 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 291112004795 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This...; Region: Alpha_ANH_like_II; cd01993 291112004796 Ligand Binding Site; other site 291112004797 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 291112004798 Domain of unknown function (DUF333); Region: DUF333; pfam03891 291112004799 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 291112004800 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; cl09110 291112004801 transmembrane helices; other site 291112004802 fatty acid metabolism regulator; Provisional; Region: PRK04984 291112004803 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 291112004804 DNA binding site 291112004805 FCD domain; Region: FCD; cl11656 291112004806 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 291112004807 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112004808 alanine racemase; Reviewed; Region: dadX; PRK03646 291112004809 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 291112004810 active site 291112004811 pyridoxal 5'-phosphate (PLP) binding site; other site 291112004812 substrate binding site; other site 291112004813 catalytic residues; other site 291112004814 dimer interface; other site 291112004815 MltA-interacting protein MipA; Region: MipA; cl01504 291112004816 Aldose 1-epimerase; Region: Aldose_epim; cl00476 291112004817 glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PTZ00023 291112004818 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112004819 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 291112004820 SelR domain; Region: SelR; cl00369 291112004821 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 291112004822 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 291112004823 Isochorismatase family; Region: Isochorismatase; pfam00857 291112004824 catalytic triad; other site 291112004825 metal-binding site 291112004826 conserved cis-peptide bond; other site 291112004827 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cl00216 291112004828 active site/substrate binding site 291112004829 tetramer interface; other site 291112004830 protease 4; Provisional; Region: PRK10949 291112004831 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 291112004832 tandem repeat interface; other site 291112004833 oligomer interface; other site 291112004834 active site residues 291112004835 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_1; cd07019 291112004836 tandem repeat interface; other site 291112004837 oligomer interface; other site 291112004838 active site residues 291112004839 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a beta...; Region: Arsenite_oxidase; cd02135 291112004840 putative FMN binding site; other site 291112004841 selenophosphate synthetase; Provisional; Region: PRK00943 291112004842 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 291112004843 dimerization interface; other site 291112004844 putative ATP binding site; other site 291112004845 DNA topoisomerase III; Provisional; Region: PRK09031 291112004846 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by...; Region: TOPRIM_TopoIA_TopoIII; cd03362 291112004847 active site 291112004848 putative interdomain interaction site; other site 291112004849 putative metal-binding site; other site 291112004850 putative nucleotide binding site; other site 291112004851 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...; Region: TOP1Ac; cd00186 291112004852 domain I; other site 291112004853 DNA binding groove 291112004854 phosphate binding site; other site 291112004855 domain II; other site 291112004856 domain III; other site 291112004857 nucleotide binding site; other site 291112004858 catalytic site; other site 291112004859 domain IV; other site 291112004860 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 291112004861 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112004862 HflK protein; Region: hflK; TIGR01933 291112004863 Phage Tail Collar Domain; Region: Collar; pfam07484 291112004864 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 291112004865 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 291112004866 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; cl12031 291112004867 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...; Region: trans_reg_C; cl00209 291112004868 DNA binding site 291112004869 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; cl12125 291112004870 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 291112004871 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 291112004872 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 291112004873 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 291112004874 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 291112004875 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; cl12125 291112004876 Phage protein D [General function prediction only]; Region: COG3500; cl12180 291112004877 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 291112004878 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 291112004879 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 291112004880 Baseplate J-like protein; Region: Baseplate_J; cl01294 291112004881 Phage Tail Collar Domain; Region: Collar; pfam07484 291112004882 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 291112004883 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...; Region: AAA; cd00009 291112004884 Walker A motif; other site 291112004885 ATP binding site; other site 291112004886 Walker B motif; other site 291112004887 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 291112004888 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; cl09110 291112004889 gluconate transporter; Region: gntP; TIGR00791 291112004890 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 291112004891 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112004892 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 291112004893 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112004894 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 291112004895 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 291112004896 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II)...; Region: Aldolase_II; cl00214 291112004897 intersubunit interface; other site 291112004898 active site 291112004899 Zn2+ binding site; other site 291112004900 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 291112004901 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 291112004902 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112004903 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 291112004904 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 291112004905 Formyl transferase; Region: Formyl_trans_N; cl00395 291112004906 hypothetical protein; Provisional; Region: PRK01617 291112004907 SEC-C motif; Region: SEC-C; cl12132 291112004908 response regulator of RpoS; Provisional; Region: PRK10693 291112004909 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 291112004910 active site 291112004911 phosphorylation site 291112004912 intermolecular recognition site; other site 291112004913 dimerization interface; other site 291112004914 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 291112004915 active site 291112004916 tetramer interface; other site 291112004917 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 291112004918 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112004919 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 291112004920 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 291112004921 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 291112004922 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112004923 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 291112004924 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 291112004925 Thymidine kinase; Region: TK; cl00631 291112004926 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 291112004927 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 291112004928 putative catalytic cysteine; other site 291112004929 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 291112004930 putative active site; other site 291112004931 metal-binding site 291112004932 MarC family integral membrane protein; Region: MarC; cl00919 291112004933 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 291112004934 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 291112004935 peptide binding site; other site 291112004936 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 291112004937 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 291112004938 peptide binding site; other site 291112004939 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...; Region: TM_PBP2; cd06261 291112004940 dimer interface; other site 291112004941 conserved gate region; other site 291112004942 putative PBP binding loops; other site 291112004943 ABC-ATPase subunit interface; other site 291112004944 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...; Region: TM_PBP2; cd06261 291112004945 dimer interface; other site 291112004946 conserved gate region; other site 291112004947 ABC-ATPase subunit interface; other site 291112004948 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 291112004949 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 291112004950 Walker A/P-loop; other site 291112004951 ATP binding site; other site 291112004952 Q-loop/lid; other site 291112004953 ABC transporter signature motif; other site 291112004954 Walker B; other site 291112004955 D-loop; other site 291112004956 H-loop/switch region; other site 291112004957 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 291112004958 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 291112004959 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 291112004960 Walker A/P-loop; other site 291112004961 ATP binding site; other site 291112004962 Q-loop/lid; other site 291112004963 ABC transporter signature motif; other site 291112004964 Walker B; other site 291112004965 D-loop; other site 291112004966 H-loop/switch region; other site 291112004967 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 291112004968 Protein of unknown function, DUF440; Region: DUF440; cl11472 291112004969 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 291112004970 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 291112004971 active site 291112004972 signature motif; other site 291112004973 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 291112004974 active site 291112004975 signature motif; other site 291112004976 transport protein TonB; Provisional; Region: PRK10819 291112004977 Gram-negative bacterial tonB protein; Region: TonB; cl10048 291112004978 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain...; Region: BFIT_BACH; cd03442 291112004979 Intracellular septation protein A; Region: IspA; cl01098 291112004980 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 291112004981 Permease family; Region: Xan_ur_permease; cl00967 291112004982 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 291112004983 Predicted transcriptional regulator [Transcription]; Region: COG4190 291112004984 Surface antigen; Region: Surface_Ag_2; cl01155 291112004985 Uncharacterized protein family (UPF0259); Region: UPF0259; cl11642 291112004986 Surface antigen; Region: Surface_Ag_2; cl01155 291112004987 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 291112004988 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...; Region: Tryptophan_synthase_alpha; cd04724 291112004989 substrate binding site; other site 291112004990 active site 291112004991 catalytic residues; other site 291112004992 heterodimer interface; other site 291112004993 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 291112004994 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 291112004995 pyridoxal 5'-phosphate binding site; other site 291112004996 catalytic residue; other site 291112004997 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 291112004998 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 291112004999 active site 291112005000 ribulose/triose binding site; other site 291112005001 phosphate binding site; other site 291112005002 substrate (anthranilate) binding pocket; other site 291112005003 product (indole) binding pocket; other site 291112005004 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 monomeric...; Region: PRAI; cd00405 291112005005 active site 291112005006 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 291112005007 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 291112005008 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 291112005009 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 291112005010 Glutamine amidotransferase class-I; Region: GATase; pfam00117 291112005011 glutamine binding; other site 291112005012 catalytic triad; other site 291112005013 anthranilate synthase component I; Provisional; Region: PRK13564 291112005014 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 291112005015 chorismate binding enzyme; Region: Chorismate_bind; cl10555 291112005016 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 291112005017 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is...; Region: GH18_chitinase; cd06548 291112005018 active site 291112005019 Salmonella virulence plasmid 28.1kDa A protein; Region: VRP1; pfam03538 291112005020 Salmonella virulence plasmid 28.1kDa A protein; Region: VRP1; pfam03538 291112005021 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 291112005022 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is...; Region: GH18_chitinase; cd06548 291112005023 active site 291112005024 putative transposase OrfB; Reviewed; Region: PHA02517 291112005025 Integrase core domain; Region: rve; cl01316 291112005026 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 291112005027 DNA polymerase alpha chain like domain; Region: POLIIIAc; cl02625 291112005028 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 291112005029 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 291112005030 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 291112005031 PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like. This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluB; cd02556 291112005032 probable active site; other site 291112005033 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 291112005034 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 291112005035 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...; Region: CobA_CobO_BtuR; cd00561 291112005036 homodimer interface; other site 291112005037 Walker A motif; other site 291112005038 ATP binding site; other site 291112005039 hydroxycobalamin binding site; other site 291112005040 Walker B motif; other site 291112005041 short chain dehydrogenase; Provisional; Region: PRK08945 291112005042 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112005043 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 291112005044 PA-IL-like protein; Region: PA-IL; pfam07828 291112005045 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 291112005046 putative periplasmic protease; Provisional; Region: PRK11778 291112005047 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 291112005048 tandem repeat interface; other site 291112005049 oligomer interface; other site 291112005050 active site residues 291112005051 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 291112005052 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; cl12031 291112005053 DNA topoisomerase I; Validated; Region: PRK09001 291112005054 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...; Region: TOPRIM_TopoIA_TopoI; cd03363 291112005055 active site 291112005056 interdomain interaction site; other site 291112005057 putative metal-binding site; other site 291112005058 nucleotide binding site; other site 291112005059 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...; Region: TOP1Ac; cd00186 291112005060 domain I; other site 291112005061 DNA binding groove 291112005062 phosphate binding site; other site 291112005063 domain II; other site 291112005064 domain III; other site 291112005065 nucleotide binding site; other site 291112005066 catalytic site; other site 291112005067 domain IV; other site 291112005068 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 291112005069 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 291112005070 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 291112005071 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 291112005072 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112005073 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 291112005074 dimerization interface; other site 291112005075 aconitate hydratase; Validated; Region: PRK09277 291112005076 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 291112005077 substrate binding site; other site 291112005078 ligand binding site; other site 291112005079 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 291112005080 substrate binding site; other site 291112005081 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 291112005082 dimerization interface; other site 291112005083 active site 291112005084 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 291112005085 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 291112005086 tetratricopeptide repeat protein; Provisional; Region: PRK11788 291112005087 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 291112005088 binding surface 291112005089 TPR motif; other site 291112005090 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 contains two...; Region: OMP_decarboxylase_like; cd04725 291112005091 active site 291112005092 dimer interface; other site 291112005093 translation initiation factor Sui1; Validated; Region: PRK06824 291112005094 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation. This fold, which includes two...; Region: SUI1_eIF1; cd00474 291112005095 Predicted RNA interaction site; other site 291112005096 putative binding site; other site 291112005097 Mutations affecting start-site selection; other site 291112005098 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 291112005099 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 291112005100 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 291112005101 HipA-like N-terminal domain; Region: HipA_N; pfam07805 291112005102 HipA-like C-terminal domain; Region: HipA_C; pfam07804 291112005103 Fic family protein [Function unknown]; Region: COG3177 291112005104 Fic/DOC family; Region: Fic; cl00960 291112005105 Predicted amidohydrolase [General function prediction only]; Region: COG0388 291112005106 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 291112005107 putative active site; other site 291112005108 catalytic triad; other site 291112005109 putative dimer interface; other site 291112005110 Integrase core domain; Region: rve; cl01316 291112005111 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 291112005112 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 291112005113 Yersinia/Haemophilus virulence surface antigen; Region: Peptidase_C58; cl04145 291112005114 C-terminal region of Pasteurella multocida toxin residues 569-1285; Region: PMT_C; pfam11647 291112005115 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 291112005116 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...; Region: AAA; cd00009 291112005117 Walker A motif; other site 291112005118 ATP binding site; other site 291112005119 Walker B motif; other site 291112005120 Baseplate J-like protein; Region: Baseplate_J; cl01294 291112005121 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 291112005122 Phage protein D [General function prediction only]; Region: COG3500; cl12180 291112005123 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 291112005124 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 291112005125 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; cl12125 291112005126 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 291112005127 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 291112005128 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; cl12125 291112005129 exoribonuclease II; Provisional; Region: PRK05054 291112005130 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 291112005131 RNB domain; Region: RNB; pfam00773 291112005132 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 291112005133 endonuclease III; Provisional; Region: PRK10702 291112005134 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 291112005135 minor groove reading motif; other site 291112005136 helix-hairpin-helix signature motif; other site 291112005137 substrate binding pocket; other site 291112005138 active site 291112005139 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 291112005140 FMN-binding domain; Region: FMN_bind; cl01081 291112005141 RnfE family; Region: NQR2_RnfD_RnfE; cl00779 291112005142 electron transport complex protein RnfC; Provisional; Region: PRK05035 291112005143 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 291112005144 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 291112005145 4Fe-4S binding domain; Region: Fer4; pfam00037 291112005146 electron transport complex protein RnfB; Provisional; Region: PRK05113 291112005147 Putative Fe-S cluster; Region: FeS; pfam04060 291112005148 4Fe-4S binding domain; Region: Fer4; pfam00037 291112005149 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 291112005150 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 291112005151 putative oxidoreductase; Provisional; Region: PRK11579 291112005152 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112005153 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 291112005154 Membrane transport protein; Region: Mem_trans; cl09117 291112005155 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 291112005156 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112005157 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 291112005158 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 291112005159 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 291112005160 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 291112005161 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 291112005162 inhibitor-cofactor binding pocket; inhibition site 291112005163 pyridoxal 5'-phosphate binding site; other site 291112005164 catalytic residue; other site 291112005165 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 291112005166 active site 291112005167 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 291112005168 active site 291112005169 Myo-inositol-1-phosphate synthase; Region: Inos-1-P_synth; cl00554 291112005170 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; pfam07994 291112005171 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 291112005172 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 291112005173 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 291112005174 active site 291112005175 dimerization interface; other site 291112005176 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 291112005177 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 291112005178 active site 291112005179 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 291112005180 MatE; Region: MatE; pfam01554 291112005181 MatE; Region: MatE; pfam01554 291112005182 Phd_YefM; Region: PhdYeFM; cl09153 291112005183 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of highly...; Region: nylC_like; cd02252 291112005184 putative active site pocket; other site 291112005185 cleavage site 291112005186 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 291112005187 L-aspartate oxidase; Provisional; Region: PRK08071 291112005188 A subunit; Region: glycerol3P_GlpA; TIGR03377 291112005189 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 291112005190 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 291112005191 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112005192 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 291112005193 hydroxyproline-2-epimerase; Provisional; Region: PRK13971; cl11700 291112005194 PAS fold; Region: PAS_4; pfam08448 291112005195 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 291112005196 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 291112005197 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 291112005198 Dihydrodipicolinate synthase family. A member of the class I aldolases, which use an active-site lysine which stablilzes a reaction intermediate via Schiff base formation, and have TIM beta/alpha barrel fold. The dihydrodipicolinate synthase family...; Region: DHDPS-like; cd00408 291112005199 inhibitor site; inhibition site 291112005200 active site 291112005201 dimer interface; other site 291112005202 catalytic residue; other site 291112005203 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 291112005204 dimer interface; other site 291112005205 NADP binding site; other site 291112005206 catalytic residues; other site 291112005207 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 291112005208 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 291112005209 adenosine deaminase; Provisional; Region: PRK09358 291112005210 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 291112005211 active site 291112005212 purine riboside binding site; other site 291112005213 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 291112005214 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 291112005215 mannose-6-phosphate isomerase; Provisional; Region: PLN03067; cl11740 291112005216 fumarate hydratase; Reviewed; Region: fumC; PRK00485 291112005217 Class II fumarases; Region: Fumarase_classII; cd01362 291112005218 active site 291112005219 tetramer interface; other site 291112005220 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 291112005221 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 291112005222 RES domain; Region: RES; cl02411 291112005223 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 291112005224 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 291112005225 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_11; cd07261 291112005226 putative dimer interface; other site 291112005227 DNA replication terminus site-binding protein (Ter protein); Region: Ter; cl11502 291112005228 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; cl14056 291112005229 LysE type translocator; Region: LysE; cl00565 291112005230 Chitin binding domain; Region: Chitin_bind_3; pfam03067 291112005231 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; cl01551 291112005232 PspA/IM30 family; Region: PspA_IM30; pfam04012 291112005233 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 291112005234 Predicted membrane protein [Function unknown]; Region: COG3766 291112005235 Protein of unknown function (DUF1190); Region: DUF1190; cl10031 291112005236 Glutathionylspermidine synthase; Region: GSP_synth; cl00503 291112005237 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 291112005238 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 291112005239 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112005240 putative substrate translocation pore; other site 291112005241 Transcriptional regulator [Transcription]; Region: LysR; COG0583 291112005242 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112005243 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 291112005244 dimerization interface; other site 291112005245 substrate binding pocket; other site 291112005246 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 291112005247 ROK family; Region: ROK; cl09121 291112005248 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 291112005249 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 291112005250 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 291112005251 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 291112005252 Protein of unknown function (DUF1283); Region: DUF1283; cl11644 291112005253 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112005254 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 291112005255 tyrosine 2,3-aminomutase; Region: Tyr_2_3_mutase; TIGR03832 291112005256 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 291112005257 active sites 291112005258 tetramer interface; other site 291112005259 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 291112005260 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is...; Region: GH18_chitinase; cd06548 291112005261 active site 291112005262 Chitin/cellulose binding domain. Putative carbohydrate binding domain found in many different glycosyl hydrolase enzymes. May occur in tandem arrangements; Region: ChtBD3; cl00046 291112005263 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 291112005264 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112005265 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112005266 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112005267 Cupin domain; Region: Cupin_2; cl09118 291112005268 YcfA-like protein; Region: YcfA; cl00752 291112005269 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 291112005270 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 291112005271 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 291112005272 ATP binding site; other site 291112005273 dimerization interface; other site 291112005274 metal-binding site 291112005275 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 291112005276 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 291112005277 ATP binding site; other site 291112005278 dimerization interface; other site 291112005279 metal-binding site 291112005280 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 291112005281 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 291112005282 dimerization interface; other site 291112005283 putative DNA binding site; other site 291112005284 putative Zn2+ binding site; other site 291112005285 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 291112005286 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 291112005287 Outer membrane efflux protein; Region: OEP; pfam02321 291112005288 Outer membrane efflux protein; Region: OEP; pfam02321 291112005289 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 291112005290 Predicted permease; Region: FtsX; cl11418 291112005291 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 291112005292 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 291112005293 Walker A/P-loop; other site 291112005294 ATP binding site; other site 291112005295 Q-loop/lid; other site 291112005296 ABC transporter signature motif; other site 291112005297 Walker B; other site 291112005298 D-loop; other site 291112005299 H-loop/switch region; other site 291112005300 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 291112005301 homodimer interface; other site 291112005302 homotetramer interface; other site 291112005303 active site pocket 291112005304 cleavage site 291112005305 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 291112005306 L-iditol 2-dehydrogenase; Region: PLN02702 291112005307 inhibitor binding site; inhibition site 291112005308 catalytic Zn binding site; other site 291112005309 structural Zn binding site; other site 291112005310 NADP binding site; other site 291112005311 tetramer interface; other site 291112005312 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 291112005313 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 291112005314 conserved cys residue; other site 291112005315 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 291112005316 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 291112005317 conserved cys residue; other site 291112005318 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 291112005319 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; cl12031 291112005320 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 291112005321 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 291112005322 inhibitor-cofactor binding pocket; inhibition site 291112005323 pyridoxal 5'-phosphate binding site; other site 291112005324 catalytic residue; other site 291112005325 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 291112005326 pyridoxal 5'-phosphate binding pocket; other site 291112005327 L-tyrosine decarboxylase; Provisional; Region: PRK13520 291112005328 catalytic residue; other site 291112005329 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 291112005330 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 291112005331 NAD(P) binding site; other site 291112005332 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 291112005333 S-adenosylmethionine binding site; other site 291112005334 Condensation domain; Region: Condensation; cl09290 291112005335 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112005336 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112005337 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112005338 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; cl12031 291112005339 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 291112005340 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 291112005341 active site 291112005342 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 291112005343 Acyl transferase domain; Region: Acyl_transf_1; cl08282 291112005344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112005345 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112005346 Condensation domain; Region: Condensation; cl09290 291112005347 peptide synthase; Provisional; Region: PRK12467 291112005348 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112005349 Condensation domain; Region: Condensation; cl09290 291112005350 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 291112005351 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 291112005352 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 291112005353 CoenzymeA binding site; other site 291112005354 subunit interaction site; other site 291112005355 PHB binding site; other site 291112005356 Condensation domain; Region: Condensation; cl09290 291112005357 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112005358 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112005359 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112005360 Condensation domain; Region: Condensation; cl09290 291112005361 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112005362 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112005363 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112005364 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112005365 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 291112005366 hypothetical protein; Provisional; Region: PRK10281 291112005367 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 291112005368 nucleoside/Zn binding site; other site 291112005369 dimer interface; other site 291112005370 catalytic motif; other site 291112005371 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112005372 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 291112005373 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 291112005374 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 291112005375 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 291112005376 helix swapped region; other site 291112005377 homodimer interface; other site 291112005378 3-hydroxy-3-methylglutaryl Coenzyme A reductase, hydroxymethylglutaryl-CoA reductase (NADP); Region: HMG_CoA_R_NADP; TIGR00533 291112005379 substrate binding pocket; other site 291112005380 catalytic residues; other site 291112005381 NADH/NADPH cofactor binding site; other site 291112005382 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 291112005383 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 291112005384 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 291112005385 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 291112005386 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 291112005387 carboxyltransferase (CT) interaction site; other site 291112005388 biotinylation site; other site 291112005389 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 291112005390 2-methylcitrate dehydratase; Region: prpD; TIGR02330 291112005391 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 291112005392 cell division protein; Validated; Region: ftsH; CHL00176 291112005393 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...; Region: AAA; cd00009 291112005394 Walker A motif; other site 291112005395 ATP binding site; other site 291112005396 Walker B motif; other site 291112005397 arginine finger; other site 291112005398 Baseplate J-like protein; Region: Baseplate_J; cl01294 291112005399 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 291112005400 Phage protein D [General function prediction only]; Region: COG3500; cl12180 291112005401 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 291112005402 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; cl12125 291112005403 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 291112005404 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 291112005405 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; cl12125 291112005406 Transcriptional regulator [Transcription]; Region: LysR; COG0583 291112005407 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112005408 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 291112005409 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 291112005410 dimer interface; other site 291112005411 PYR/PP interface; other site 291112005412 TPP binding site; other site 291112005413 substrate binding site; other site 291112005414 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin...; Region: TPP_enzymes; cl01629 291112005415 TPP-binding site; other site 291112005416 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 291112005417 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 291112005418 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 291112005419 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112005420 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 291112005421 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 291112005422 putative active site; other site 291112005423 putative FMN binding site; other site 291112005424 putative substrate binding site; other site 291112005425 putative catalytic residue; other site 291112005426 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112005427 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 291112005428 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112005429 putative substrate translocation pore; other site 291112005430 Fungal trichothecene efflux pump (TRI12); Region: TRI12; pfam06609 291112005431 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112005432 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 291112005433 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...; Region: Asn_Synthase_B_C; cd01991 291112005434 Ligand Binding Site; other site 291112005435 Molecular Tunnel; other site 291112005436 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 291112005437 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112005438 Walker A/P-loop; other site 291112005439 ATP binding site; other site 291112005440 Q-loop/lid; other site 291112005441 ABC transporter signature motif; other site 291112005442 Walker B; other site 291112005443 D-loop; other site 291112005444 H-loop/switch region; other site 291112005445 PA-IL-like protein; Region: PA-IL; pfam07828 291112005446 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...; Region: PBPb; cd00134 291112005447 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 291112005448 substrate binding pocket; other site 291112005449 membrane-bound complex binding site; other site 291112005450 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...; Region: PBPb; cd00134 291112005451 substrate binding pocket; other site 291112005452 membrane-bound complex binding site; other site 291112005453 hinge residues; other site 291112005454 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 trans-...; Region: HisKA; cd00082 291112005455 dimer interface; other site 291112005456 phosphorylation site 291112005457 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 291112005458 ATP binding site; other site 291112005459 Mg2+ binding site; other site 291112005460 G-X-G motif; other site 291112005461 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 291112005462 active site 291112005463 phosphorylation site 291112005464 intermolecular recognition site; other site 291112005465 dimerization interface; other site 291112005466 transcriptional regulator RcsB; Provisional; Region: PRK10840 291112005467 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 291112005468 active site 291112005469 phosphorylation site 291112005470 intermolecular recognition site; other site 291112005471 dimerization interface; other site 291112005472 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...; Region: LuxR_C_like; cd06170 291112005473 DNA binding residues 291112005474 dimerization interface; other site 291112005475 MASE1; Region: MASE1; cl01367 291112005476 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 291112005477 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...; Region: AAA; cd00009 291112005478 Walker A motif; other site 291112005479 ATP binding site; other site 291112005480 Walker B motif; other site 291112005481 arginine finger; other site 291112005482 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...; Region: AAA; cd00009 291112005483 Walker A motif; other site 291112005484 ATP binding site; other site 291112005485 Walker B motif; other site 291112005486 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 291112005487 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 291112005488 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 291112005489 Bacterial protein of unknown function (DUF876); Region: DUF876; cl01406 291112005490 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 291112005491 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 291112005492 Uncharacterized conserved protein [Function unknown]; Region: COG4104 291112005493 PAAR motif; Region: PAAR_motif; pfam05488 291112005494 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 291112005495 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 291112005496 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 291112005497 Bacterial protein of unknown function (DUF879); Region: DUF879; cl09183 291112005498 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 291112005499 Protein of unknown function (DUF796); Region: DUF796; cl01226 291112005500 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 291112005501 Protein of unknown function (DUF877); Region: DUF877; pfam05943 291112005502 Protein of unknown function (DUF770); Region: DUF770; cl01402 291112005503 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 291112005504 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 291112005505 Phage Tail Collar Domain; Region: Collar; pfam07484 291112005506 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 291112005507 Phage Tail Collar Domain; Region: Collar; pfam07484 291112005508 haemagglutination activity domain; Region: Haemagg_act; cl05436 291112005509 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 291112005510 Possible hemagglutinin (DUF638); Region: DUF638; pfam04829 291112005511 Phd_YefM; Region: PhdYeFM; cl09153 291112005512 Beta-lactamase; Region: Beta-lactamase; cl01009 291112005513 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; cl12031 291112005514 Cupin domain; Region: Cupin_2; cl09118 291112005515 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 291112005516 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 291112005517 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 291112005518 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 291112005519 N-terminal plug; other site 291112005520 ligand-binding site; other site 291112005521 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 291112005522 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 291112005523 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 291112005524 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 291112005525 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112005526 Walker A/P-loop; other site 291112005527 ATP binding site; other site 291112005528 Q-loop/lid; other site 291112005529 ABC transporter signature motif; other site 291112005530 Walker B; other site 291112005531 D-loop; other site 291112005532 H-loop/switch region; other site 291112005533 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 291112005534 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112005535 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 291112005536 Walker A/P-loop; other site 291112005537 ATP binding site; other site 291112005538 Q-loop/lid; other site 291112005539 ABC transporter signature motif; other site 291112005540 Walker B; other site 291112005541 D-loop; other site 291112005542 H-loop/switch region; other site 291112005543 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112005544 Condensation domain; Region: Condensation; cl09290 291112005545 Nonribosomal peptide synthase; Region: NRPS; pfam08415 291112005546 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112005547 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112005548 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; cl12011 291112005549 peptide synthase; Provisional; Region: PRK12316 291112005550 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112005551 Condensation domain; Region: Condensation; cl09290 291112005552 Nonribosomal peptide synthase; Region: NRPS; pfam08415 291112005553 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112005554 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 291112005555 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 291112005556 active site 291112005557 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 291112005558 Acyl transferase domain; Region: Acyl_transf_1; cl08282 291112005559 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112005560 Condensation domain; Region: Condensation; cl09290 291112005561 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 291112005562 Nonribosomal peptide synthase; Region: NRPS; pfam08415 291112005563 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 291112005564 S-adenosylmethionine binding site; other site 291112005565 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112005566 Condensation domain; Region: Condensation; cl09290 291112005567 Nonribosomal peptide synthase; Region: NRPS; pfam08415 291112005568 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112005569 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112005570 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112005571 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112005572 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112005573 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; cl12031 291112005574 Thioesterase domain; Region: Thioesterase; pfam00975 291112005575 thiazolinyl imide reductase; Region: thiaz-red; TIGR01761 291112005576 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112005577 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; cl12031 291112005578 Thioesterase domain; Region: Thioesterase; pfam00975 291112005579 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 291112005580 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112005581 salicylate synthase; Region: salicyl_syn; TIGR03494 291112005582 chorismate binding enzyme; Region: Chorismate_bind; cl10555 291112005583 Cupin domain; Region: Cupin_2; cl09118 291112005584 Cupin domain; Region: Cupin_2; cl09118 291112005585 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 291112005586 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 291112005587 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 291112005588 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 291112005589 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 291112005590 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 291112005591 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 291112005592 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; cl12031 291112005593 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 291112005594 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 291112005595 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 291112005596 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 291112005597 putative active site; other site 291112005598 ABC-type arginine transport system, ATPase component [Amino acid transport and metabolism]; Region: ArtP; COG4161 291112005599 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112005600 ABC transporter signature motif; other site 291112005601 Walker B; other site 291112005602 D-loop; other site 291112005603 H-loop/switch region; other site 291112005604 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 291112005605 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 291112005606 active site 291112005607 OsmC-like protein; Region: OsmC; cl00767 291112005608 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 291112005609 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 291112005610 pyridoxal 5'-phosphate binding pocket; other site 291112005611 catalytic residue; other site 291112005612 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 291112005613 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 291112005614 NAD(P) binding site; other site 291112005615 Viral enhancin protein; Region: Enhancin; pfam03272 291112005616 DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 291112005617 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-...; Region: MopB_DmsA-EC; cd02770 291112005618 putative [Fe4-S4] binding site; other site 291112005619 putative molybdopterin cofactor binding site; other site 291112005620 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-...; Region: MopB_CT_DmsA-EC; cd02794 291112005621 putative molybdopterin cofactor binding site; other site 291112005622 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 291112005623 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 291112005624 peptide binding site; other site 291112005625 RES domain; Region: RES; cl02411 291112005626 PIN domain; Region: PIN; cl09128 291112005627 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 291112005628 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 291112005629 peptide binding site; other site 291112005630 Ubiquitin-like proteins; Region: UBQ; cl00155 291112005631 hydrophobic patch; other site 291112005632 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 291112005633 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues...; Region: WD40; cd00200 291112005634 structural tetrad; other site 291112005635 FOG: WD40 repeat [General function prediction only]; Region: COG2319 291112005636 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues...; Region: WD40; cl02567 291112005637 structural tetrad; other site 291112005638 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 291112005639 dimerization interface; other site 291112005640 active site 291112005641 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 291112005642 Protein of unknown function (DUF990); Region: DUF990; cl01496 291112005643 Protein of unknown function (DUF990); Region: DUF990; cl01496 291112005644 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 291112005645 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112005646 Walker A/P-loop; other site 291112005647 ATP binding site; other site 291112005648 Q-loop/lid; other site 291112005649 ABC transporter signature motif; other site 291112005650 Walker B; other site 291112005651 D-loop; other site 291112005652 H-loop/switch region; other site 291112005653 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues...; Region: WD40; cl02567 291112005654 structural tetrad; other site 291112005655 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 291112005656 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112005657 Subunit B of the Class III Extradiol ring-cleavage dioxygenase, 2,3-dihydroxyphenylpropionate 1,2-dioxygenase (MhpB), which catalyzes the oxidization and subsequent ring-opening of 2,3-dihydroxyphenylpropionate; Region: MhpB_like; cd07365 291112005658 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 291112005659 putative active site; other site 291112005660 Fe(II) binding site; other site 291112005661 putative dimer interface; other site 291112005662 putative tetramer interface; other site 291112005663 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112005664 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 291112005665 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...; Region: Rieske_RO_ferredoxin; cd03528 291112005666 [2Fe-2S] cluster binding site; other site 291112005667 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 291112005668 inter-subunit interface; other site 291112005669 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 291112005670 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)...; Region: Rieske; cl00938 291112005671 iron-sulfur cluster; other site 291112005672 [2Fe-2S] cluster binding site; other site 291112005673 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 291112005674 beta subunit interface; other site 291112005675 alpha subunit interface; other site 291112005676 active site 291112005677 substrate binding site; other site 291112005678 Fe binding site; other site 291112005679 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 291112005680 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112005681 The C-terminal substrate binding domain of LysR-type transcriptional regulator HcaR in involved in 3-phenylpropionic acid catabolism, contains the type2 periplasmic binding fold; Region: PBP2_HcaR; cd08450 291112005682 putative dimerization interface; other site 291112005683 putative substrate binding pocket; other site 291112005684 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 291112005685 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; cl12031 291112005686 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; cl12031 291112005687 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 291112005688 Indigoidine synthase A like protein; Region: Indigoidine_A; cl00983 291112005689 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112005690 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112005691 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the...; Region: mcbC-like_oxidoreductase; cd02142 291112005692 NADPH bind site; other site 291112005693 peptide synthase; Provisional; Region: PRK12467 291112005694 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112005695 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; cl12031 291112005696 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_31; cd04690 291112005697 nudix motif; other site 291112005698 Protein of unknown function, DUF606; Region: DUF606; cl01273 291112005699 Protein of unknown function, DUF606; Region: DUF606; cl01273 291112005700 3-amino-5-hydroxybenoic acid synthesis related protein; Region: AHBA_synth_RP; TIGR01454 291112005701 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 291112005702 motif II; other site 291112005703 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 291112005704 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 291112005705 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 291112005706 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 291112005707 ligand binding site; other site 291112005708 flexible hinge region; other site 291112005709 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 291112005710 putative switch regulator; other site 291112005711 non-specific DNA interactions; other site 291112005712 DNA binding site 291112005713 sequence specific DNA binding site; other site 291112005714 putative cAMP binding site; other site 291112005715 universal stress protein UspE; Provisional; Region: PRK11175 291112005716 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 291112005717 Ligand Binding Site; other site 291112005718 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 291112005719 Ligand Binding Site; other site 291112005720 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 291112005721 S-adenosylmethionine binding site; other site 291112005722 UreD urease accessory protein; Region: UreD; cl00530 291112005723 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 291112005724 UreF; Region: UreF; cl00531 291112005725 urease accessory protein UreE; Provisional; Region: ureE; PRK14711 291112005726 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The C-...; Region: UreE; cd00571 291112005727 dimer interface; other site 291112005728 catalytic residues; other site 291112005729 urease subunit alpha; Reviewed; Region: ureC; PRK13309 291112005730 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 291112005731 subunit interactions; other site 291112005732 active site 291112005733 flap region; other site 291112005734 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_beta; cd00407 291112005735 gamma-beta subunit interface; other site 291112005736 alpha-beta subunit interface; other site 291112005737 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 291112005738 alpha-gamma subunit interface; other site 291112005739 beta-gamma subunit interface; other site 291112005740 High-affinity nickel-transport protein; Region: NicO; cl00964 291112005741 Predicted transcriptional regulator [Transcription]; Region: COG3905 291112005742 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside...; Region: NK; cl11962 291112005743 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 291112005744 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112005745 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...; Region: Nudix_Hydrolase; cl00447 291112005746 nudix motif; other site 291112005747 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 291112005748 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 291112005749 pyridoxal 5'-phosphate binding pocket; other site 291112005750 catalytic residue; other site 291112005751 S-adenosylmethionine synthetase; Provisional; Region: PRK04439 291112005752 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 291112005753 Survival protein SurE; Region: SurE; cl00448 291112005754 Myo-inositol-1-phosphate synthase; Region: Inos-1-P_synth; cl00554 291112005755 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; pfam07994 291112005756 NAD(P) transhydrogenase beta subunit; Region: PNTB; cl00566 291112005757 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 291112005758 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 291112005759 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 291112005760 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 291112005761 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 291112005762 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112005763 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 291112005764 'initiating' condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are characterized by...; Region: init_cond_enzymes; cd00827 291112005765 dimer interface; other site 291112005766 active site 291112005767 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 291112005768 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 291112005769 hypothetical protein; Provisional; Region: PRK09857 291112005770 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 291112005771 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 291112005772 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; cl12031 291112005773 Fimbrial protein; Region: Fimbrial; cl01416 291112005774 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 291112005775 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 291112005776 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 291112005777 Fimbrial Usher protein; Region: Usher; pfam00577 291112005778 Fimbrial protein; Region: Fimbrial; cl01416 291112005779 Protein of unknown function (DUF796); Region: DUF796; cl01226 291112005780 Domain of unknown function (DUF1902); Region: DUF1902; pfam08972 291112005781 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 291112005782 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 291112005783 ATP binding site; other site 291112005784 putative Mg++ binding site; other site 291112005785 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 291112005786 nucleotide binding region; other site 291112005787 ATP-binding site; other site 291112005788 Helicase associated domain (HA2); Region: HA2; cl04503 291112005789 Domain of unknown function (DUF1605); Region: DUF1605; pfam07717 291112005790 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 291112005791 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 291112005792 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 291112005793 hypothetical protein; Provisional; Region: PRK10695 291112005794 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 291112005795 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 291112005796 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112005797 META domain; Region: META; cl01245 291112005798 Uncharacterized protein family (UPF0153); Region: UPF0153; cl00497 291112005799 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 291112005800 YcgL domain; Region: YcgL; cl01189 291112005801 septum formation inhibitor; Reviewed; Region: minC; PRK03511 291112005802 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 291112005803 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 291112005804 cell division inhibitor MinD; Provisional; Region: PRK10818 291112005805 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a...; Region: MinD; cd02036 291112005806 Switch I; other site 291112005807 Switch II; other site 291112005808 Septum formation topological specificity factor MinE; Region: MinE; cl00538 291112005809 ribonuclease D; Provisional; Region: PRK10829 291112005810 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 291112005811 putative active site; other site 291112005812 catalytic site; other site 291112005813 putative substrate binding site; other site 291112005814 HRDC domain; Region: HRDC; cl02578 291112005815 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 291112005816 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112005817 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 291112005818 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 291112005819 Coenzyme A binding pocket; other site 291112005820 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 291112005821 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 291112005822 Protein of unknown function (DUF1496); Region: DUF1496; pfam07383 291112005823 NlpC/P60 family; Region: NLPC_P60; cl11438 291112005824 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 291112005825 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; cl12029 291112005826 helicase superfamily c-terminal domain; Region: HELICc2; cl09250 291112005827 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 291112005828 homotrimer interaction site; other site 291112005829 putative active site; other site 291112005830 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 291112005831 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 291112005832 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 291112005833 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 291112005834 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 291112005835 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 291112005836 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...; Region: SIS_RpiR; cd05013 291112005837 putative active site; other site 291112005838 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 291112005839 Phage protein D [General function prediction only]; Region: COG3500; cl12180 291112005840 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 291112005841 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 291112005842 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 291112005843 active site flap/lid 291112005844 nucleophilic elbow; other site 291112005845 catalytic triad; other site 291112005846 Bacterial protein of unknown function (DUF879); Region: DUF879; cl09183 291112005847 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 291112005848 active site flap/lid 291112005849 nucleophilic elbow; other site 291112005850 catalytic triad; other site 291112005851 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 291112005852 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112005853 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 291112005854 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; cl12031 291112005855 Thioesterase domain; Region: Thioesterase; pfam00975 291112005856 Cupin superfamily protein; Region: Cupin_4; pfam08007 291112005857 pyruvate kinase; Provisional; Region: PRK05826 291112005858 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; cl10032 291112005859 domain interfaces; other site 291112005860 active site 291112005862 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 291112005863 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 291112005864 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 291112005865 Walker A/P-loop; other site 291112005866 ATP binding site; other site 291112005867 Q-loop/lid; other site 291112005868 ABC transporter signature motif; other site 291112005869 Walker B; other site 291112005870 D-loop; other site 291112005871 H-loop/switch region; other site 291112005872 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 291112005873 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 291112005874 FeS/SAM binding site; other site 291112005875 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 291112005876 putative acyl-acceptor binding pocket; other site 291112005877 hypothetical protein; Provisional; Region: PRK11649 291112005878 Peptidase family M23; Region: Peptidase_M23; pfam01551 291112005879 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism...; Region: ZnuA; cd01019 291112005880 metal-binding site 291112005881 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 291112005882 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-...; Region: ABC_Metallic_Cations; cd03235 291112005883 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...; Region: TM_ABC_iron-siderophores_like; cd06550 291112005884 putative PBP binding regions; other site 291112005885 ABC-ATPase subunit interface; other site 291112005886 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 291112005887 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...; Region: AAA; cd00009 291112005888 Walker A motif; other site 291112005889 ATP binding site; other site 291112005890 Walker B motif; other site 291112005891 arginine finger; other site 291112005892 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 291112005893 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 291112005894 RuvA N terminal domain; Region: RuvA_N; pfam01330 291112005895 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 291112005896 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 includes...; Region: RuvC_resolvase; cd00529 291112005897 active site 291112005898 putative DNA-binding cleft; other site 291112005899 dimer interface; other site 291112005900 Domain of unknown function DUF28; Region: DUF28; cl00361 291112005901 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 291112005902 nudix motif; other site 291112005903 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 291112005904 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 291112005905 dimer interface; other site 291112005906 anticodon binding site; other site 291112005907 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 the...; Region: AspRS_core; cd00777 291112005908 homodimer interface; other site 291112005909 motif 1; other site 291112005910 active site 291112005911 motif 2; other site 291112005912 GAD domain; Region: GAD; pfam02938 291112005913 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 291112005914 active site 291112005915 motif 3; other site 291112005916 MAPEG family; Region: MAPEG; cl09190 291112005917 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 291112005918 S-adenosylmethionine binding site; other site 291112005919 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; cl12011 291112005920 CutC family; Region: CutC; cl01218 291112005921 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_4; cd07268 291112005922 putative metal binding site; other site 291112005923 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 291112005924 active site flap/lid 291112005925 nucleophilic elbow; other site 291112005926 catalytic triad; other site 291112005927 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 291112005928 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 291112005929 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 291112005930 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 291112005931 active site flap/lid 291112005932 nucleophilic elbow; other site 291112005933 catalytic triad; other site 291112005934 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 291112005935 active site flap/lid 291112005936 nucleophilic elbow; other site 291112005937 catalytic triad; other site 291112005938 Bacterial protein of unknown function (DUF879); Region: DUF879; cl09183 291112005939 Uncharacterized conserved protein [Function unknown]; Region: COG4104 291112005940 YceI-like domain; Region: YceI; cl01001 291112005941 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 291112005942 Putative cyclase; Region: Cyclase; cl00814 291112005943 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 291112005944 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 291112005945 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 291112005946 active site 291112005947 HIGH motif; other site 291112005948 KMSK motif region; other site 291112005949 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 291112005950 tRNA binding surface; other site 291112005951 anticodon binding site; other site 291112005952 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 291112005953 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 291112005954 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 291112005955 multidrug resistance protein MdtH; Provisional; Region: PRK11646 291112005956 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112005957 putative substrate translocation pore; other site 291112005958 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 291112005959 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 291112005960 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 291112005961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112005962 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 291112005963 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 291112005964 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112005965 Alkanal monooxygenase are flavin monoxygenases. Molecular oxygen is activated by reaction with reduced flavin mononucleotide (FMNH2) and reacts with an aldehyde to yield the carboxylic acid, oxidized flavin (FMN) and a blue-green light. Bacterial...; Region: Alkanal_monooxygenase; cd01096 291112005966 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 291112005967 dimer interface; other site 291112005968 non-prolyl cis peptide bond; other site 291112005969 active site 291112005970 Alkanal monooxygenase are flavin monoxygenases. Molecular oxygen is activated by reaction with reduced flavin mononucleotide (FMNH2) and reacts with an aldehyde to yield the carboxylic acid, oxidized flavin (FMN) and a blue-green light. Bacterial...; Region: Alkanal_monooxygenase; cd01096 291112005971 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 291112005972 dimer interface; other site 291112005973 non-prolyl cis peptide bond; other site 291112005974 active site 291112005975 acyl transferase; Provisional; Region: luxD; PRK13604 291112005976 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; cl12031 291112005977 Acyl-CoA reductase LuxC; Region: ALDH_Acyl-CoA-Red_LuxC; cd07080 291112005978 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 291112005979 putative catalytic cysteine; other site 291112005980 Uncharacterized conserved protein [Function unknown]; Region: COG4104 291112005981 PAAR motif; Region: PAAR_motif; pfam05488 291112005982 S-type Pyocin; Region: Pyocin_S; pfam06958 291112005983 Uncharacterized conserved protein [Function unknown]; Region: COG4104 291112005984 PAAR motif; Region: PAAR_motif; pfam05488 291112005985 S-type Pyocin; Region: Pyocin_S; pfam06958 291112005986 putative sulfate transporter YchM; Provisional; Region: PRK11660 291112005987 Permease family; Region: Xan_ur_permease; cl00967 291112005988 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 291112005989 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 291112005990 NeuB family; Region: NeuB; cl00496 291112005991 Uncharacterized conserved protein [Function unknown]; Region: COG2912 291112005992 putative transcriptional regulator; Provisional; Region: PRK10941 291112005993 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 291112005994 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; cl12011 291112005995 peptide chain release factor 1; Validated; Region: prfA; PRK00591 291112005996 RF-1 domain; Region: RF-1; cl02875 291112005997 RF-1 domain; Region: RF-1; cl02875 291112005998 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 291112005999 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 291112006000 tRNA; other site 291112006001 putative tRNA binding site; other site 291112006002 putative NADP binding site; other site 291112006003 Glutamyl-tRNAGlu reductase, dimerization domain; Region: GlutR_dimer; pfam00745 291112006004 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 291112006005 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 291112006006 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 291112006007 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 291112006008 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 291112006009 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 291112006010 ribose-phosphate pyrophosphokinase; Region: ribP_PPkin; TIGR01251 291112006011 Protein of unknown function (DUF2583); Region: DUF2583; cl11676 291112006012 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 291112006013 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 291112006014 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 291112006015 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 291112006016 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 291112006017 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 291112006018 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 291112006019 putative active site; other site 291112006020 catalytic residue; other site 291112006021 GTP-dependent nucleic acid-binding protein EngD; Reviewed; Region: PRK09601 291112006022 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 291112006023 G1 box; other site 291112006024 GTP/Mg2+ binding site; other site 291112006025 Switch I region; other site 291112006026 G2 box; other site 291112006027 Switch II region; other site 291112006028 G3 box; other site 291112006029 G4 box; other site 291112006030 G5 box; other site 291112006031 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 291112006032 Uncharacterized protein family (UPF0156); Region: RHH_2; cl01448 291112006033 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 291112006034 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 291112006035 DNA binding site 291112006036 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 291112006037 pyridoxal 5'-phosphate binding site; other site 291112006038 homodimer interface; other site 291112006039 catalytic residue; other site 291112006040 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 291112006041 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 291112006042 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 291112006043 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 291112006044 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 291112006045 Histidine kinase; Region: HisKA_3; pfam07730 291112006046 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 291112006047 ATP binding site; other site 291112006048 Mg2+ binding site; other site 291112006049 G-X-G motif; other site 291112006050 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 291112006051 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 291112006052 FAD binding pocket; other site 291112006053 FAD binding motif; other site 291112006054 phosphate binding motif; other site 291112006055 NAD binding pocket; other site 291112006056 Condensation domain; Region: Condensation; cl09290 291112006057 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112006058 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112006059 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112006060 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112006061 Condensation domain; Region: Condensation; cl09290 291112006062 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 291112006063 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112006064 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112006065 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112006066 PhoH-like protein; Region: PhoH; cl12134 291112006067 Endonuclease I; Region: Endonuclease_1; cl01003 291112006068 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 291112006069 EamA-like transporter family; Region: EamA; cl01037 291112006070 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 291112006071 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112006072 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 291112006073 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 291112006074 Nucleoside diphosphate kinases (NDP kinases, NDPks): NDP kinases, responsible for the synthesis of nucleoside triphosphates (NTPs), are involved in numerous regulatory processes associated with proliferation, development, and differentiation. They are...; Region: NDPk; cl00335 291112006075 active site 291112006076 multimer interface; other site 291112006077 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 291112006078 S-adenosylmethionine binding site; other site 291112006079 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside...; Region: NK; cl11962 291112006080 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N...; Region: MIP; cd00333 291112006081 amphipathic channel; other site 291112006082 Asn-Pro-Ala signature motifs; other site 291112006083 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 291112006084 Ligand Binding Site; other site 291112006085 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 291112006086 Ligand Binding Site; other site 291112006087 response regulator; Provisional; Region: PRK09483 291112006088 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 291112006089 active site 291112006090 phosphorylation site 291112006091 intermolecular recognition site; other site 291112006092 dimerization interface; other site 291112006093 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...; Region: LuxR_C_like; cd06170 291112006094 DNA binding residues 291112006095 dimerization interface; other site 291112006096 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 291112006097 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 291112006098 UvrB/uvrC motif; Region: UVR; pfam02151 291112006099 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 291112006100 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 291112006101 Tir chaperone protein (CesT); Region: CesT; cl08444 291112006102 effector protein; Provisional; Region: PRK14052 291112006103 Domain of unknown function DUF29; Region: DUF29; pfam01724 291112006104 PAS fold; Region: PAS_4; pfam08448 291112006105 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...; Region: LuxR_C_like; cd06170 291112006106 DNA binding residues 291112006107 dimerization interface; other site 291112006108 PAS fold; Region: PAS_4; pfam08448 291112006109 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...; Region: LuxR_C_like; cd06170 291112006110 DNA binding residues 291112006111 dimerization interface; other site 291112006112 PAS fold; Region: PAS_4; pfam08448 291112006113 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...; Region: LuxR_C_like; cl10457 291112006114 PAS fold; Region: PAS_4; pfam08448 291112006115 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...; Region: LuxR_C_like; cd06170 291112006116 DNA binding residues 291112006117 dimerization interface; other site 291112006118 PAS fold; Region: PAS_4; pfam08448 291112006119 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...; Region: LuxR_C_like; cd06170 291112006120 DNA binding residues 291112006121 dimerization interface; other site 291112006122 PAS fold; Region: PAS_4; pfam08448 291112006123 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...; Region: LuxR_C_like; cd06170 291112006124 DNA binding residues 291112006125 dimerization interface; other site 291112006126 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 291112006127 Protein of unknown function; Region: YhfT; pfam10797 291112006128 Protein of unknown function DUF2620; Region: DUF2620; pfam10941 291112006129 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: Php; COG1735 291112006130 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active...; Region: PTE; cd00530 291112006131 active site 291112006132 substrate binding pocket; other site 291112006133 homodimer interaction site; other site 291112006134 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme yhfX; Region: PLPDE_III_yhfX_like; cd06811 291112006135 dimer interface; other site 291112006136 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 291112006137 active site 291112006138 pyridoxal 5'-phosphate (PLP) binding site; other site 291112006139 substrate binding site; other site 291112006140 catalytic residue; other site 291112006141 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 291112006142 substrate binding pocket; other site 291112006143 membrane-bound complex binding site; other site 291112006144 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 291112006145 Phage integrase family; Region: Phage_integrase; pfam00589 291112006146 DNA binding site 291112006147 Int/Topo IB signature motif; other site 291112006148 active site 291112006149 PAS fold; Region: PAS_4; pfam08448 291112006150 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...; Region: LuxR_C_like; cd06170 291112006151 DNA binding residues 291112006152 dimerization interface; other site 291112006153 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 291112006154 ascorbate-specific PTS system enzyme IIC; Reviewed; Region: PRK12997 291112006155 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 291112006156 P-loop; other site 291112006157 active site 291112006158 phosphorylation site 291112006159 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 291112006160 active site 291112006161 phosphorylation site 291112006162 Transcriptional regulators [Transcription]; Region: PurR; COG1609 291112006163 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 291112006164 DNA binding site 291112006165 domain linker motif; other site 291112006166 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 291112006167 putative ligand binding site; other site 291112006168 putative dimerization interface; other site 291112006169 Predicted transcriptional regulator [Transcription]; Region: COG1959 291112006170 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112006171 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 291112006172 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 291112006173 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 291112006174 FMN binding site; other site 291112006175 active site 291112006176 substrate binding site; other site 291112006177 catalytic residue; other site 291112006178 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 291112006179 active site 291112006180 signature motif; other site 291112006181 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 291112006182 active site 291112006183 signature motif; other site 291112006184 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 291112006185 pyridoxal 5'-phosphate binding pocket; other site 291112006186 catalytic residue; other site 291112006187 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; cl09110 291112006188 gluconate transporter; Region: gntP; TIGR00791 291112006189 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 291112006190 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112006191 HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 291112006192 dimerization interface; other site 291112006193 substrate binding pocket; other site 291112006194 Surface antigen; Region: Surface_Ag_2; cl01155 291112006195 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 291112006196 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 291112006197 Amino acid permease; Region: AA_permease; pfam00324 291112006198 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 291112006199 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 291112006200 Sodium:solute symporter family; Region: SSF; cl00456 291112006201 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 291112006202 Predicted transcriptional regulator [Transcription]; Region: COG3905 291112006203 Proline dehydrogenase; Region: Pro_dh; cl03282 291112006204 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 291112006205 Glutamate binding site; other site 291112006206 NAD binding site; other site 291112006207 catalytic residues; other site 291112006208 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 291112006209 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 291112006210 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 291112006211 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 291112006212 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...; Region: Sigma70_r4; cd06171 291112006213 DNA binding residues 291112006214 flagellin; Validated; Region: PRK06819 291112006215 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 291112006216 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 291112006217 flagellar capping protein; Reviewed; Region: fliD; PRK08032 291112006218 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 291112006219 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 291112006220 Flagellar protein FliS; Region: FliS; cl00654 291112006221 Flagellar protein FliT; Region: FliT; cl05125 291112006222 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 291112006223 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 291112006224 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 291112006225 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 291112006226 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 291112006227 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 291112006228 FliG C-terminal domain; Region: FliG_C; pfam01706 291112006229 flagellar assembly protein H; Validated; Region: fliH; PRK05687 291112006230 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 291112006231 Flagellar assembly protein FliH; Region: FliH; pfam02108 291112006232 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07960 291112006233 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 291112006234 Walker A motif/ATP binding site; other site 291112006235 Walker B motif; other site 291112006236 Flagellar FliJ protein; Region: FliJ; cl09161 291112006237 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 291112006238 flagellar hook-length control protein; Provisional; Region: PRK10118 291112006239 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 291112006240 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 291112006241 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 291112006242 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 291112006243 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 291112006244 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 291112006245 FliP family; Region: FliP; cl00593 291112006246 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 291112006247 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 291112006248 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 291112006249 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 291112006250 Uncharacterized conserved protein [Function unknown]; Region: COG4104 291112006251 PAAR motif; Region: PAAR_motif; pfam05488 291112006252 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 291112006253 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 291112006254 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 291112006255 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 291112006256 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 291112006257 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 291112006258 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 291112006259 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 291112006260 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 291112006261 Rod binding protein; Region: Rod-binding; cl01626 291112006262 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 291112006263 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 291112006264 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 291112006265 Flagellar L-ring protein; Region: FlgH; cl00905 291112006266 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 291112006267 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 291112006268 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 291112006269 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 291112006270 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 291112006271 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 291112006272 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 291112006273 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 291112006274 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 291112006275 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 291112006276 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 291112006277 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 291112006278 Flagellar hook capping protein; Region: FlgD; cl04347 291112006279 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 291112006280 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 291112006281 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 291112006282 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl09471 291112006283 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 291112006284 SAF domain; Region: SAF; cl00555 291112006285 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 291112006286 FlgN protein; Region: FlgN; cl09176 291112006287 FHIPEP family; Region: FHIPEP; cl07980 291112006288 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 291112006289 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 291112006290 FlhB HrpN YscU SpaS Family; Region: Bac_export_2; pfam01312 291112006291 Uncharacterized conserved protein [Function unknown]; Region: COG4104 291112006292 PAAR motif; Region: PAAR_motif; pfam05488 291112006293 S-type Pyocin; Region: Pyocin_S; pfam06958 291112006294 Cupin domain; Region: Cupin_2; cl09118 291112006295 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 291112006296 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 291112006297 active site 291112006298 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 291112006299 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 291112006300 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 291112006301 E3 interaction surface; other site 291112006302 lipoyl attachment site; other site 291112006303 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 291112006304 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112006305 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 291112006306 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 291112006307 tetramer interface; other site 291112006308 TPP-binding site; other site 291112006309 heterodimer interface; other site 291112006310 phosphorylation loop region 291112006311 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 291112006312 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 291112006313 PYR/PP interface; other site 291112006314 dimer interface; other site 291112006315 TPP binding site; other site 291112006316 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 291112006317 Uncharacterized protein conserved in bacteria (DUF2257); Region: DUF2257; cl01794 291112006318 Condensation domain; Region: Condensation; cl09290 291112006319 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 291112006320 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112006321 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112006322 Condensation domain; Region: Condensation; cl09290 291112006323 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112006324 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112006325 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112006326 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112006327 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 291112006328 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 291112006329 active site 291112006330 Acyl transferase domain; Region: Acyl_transf_1; cl08282 291112006331 PKS_DH; Region: PKS_DH; smart00826 291112006332 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112006333 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112006334 Thioesterase domain; Region: Thioesterase; pfam00975 291112006335 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; cl12031 291112006336 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112006337 Major Facilitator Superfamily; Region: MFS_1; pfam07690 291112006338 putative substrate translocation pore; other site 291112006339 Condensation domain; Region: Condensation; cl09290 291112006340 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112006341 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112006342 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112006343 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 291112006344 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 291112006345 active site 291112006346 phosphorylation site 291112006347 intermolecular recognition site; other site 291112006348 dimerization interface; other site 291112006349 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 291112006350 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 291112006351 active site 291112006352 phosphorylation site 291112006353 intermolecular recognition site; other site 291112006354 dimerization interface; other site 291112006355 CheB methylesterase; Region: CheB_methylest; pfam01339 291112006356 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 291112006357 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 291112006358 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; cl12011 291112006359 methyl-accepting protein IV; Provisional; Region: PRK09793 291112006360 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 291112006361 dimerization interface; other site 291112006362 ligand (aspartate) binding pocket; other site 291112006363 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 connected by an extended linker. The...; Region: HAMP; cl01054 291112006364 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 291112006365 methyl-accepting protein IV; Provisional; Region: PRK09793 291112006366 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cd00181 291112006367 dimerization interface; other site 291112006368 ligand (aspartate) binding pocket; other site 291112006369 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 connected by an extended linker. The...; Region: HAMP; cl01054 291112006370 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 291112006371 Taxis toward Aspartate and Related amino acids and Homologs (TarH). The Tar chemoreceptor of Escherichia coli mediates attractant responses to aspartate, maltose, and phenol, repellent responses to Ni2+ and Co2+, and thermoresponses. These...; Region: TarH; cl00144 291112006372 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; cl00256 291112006373 chemotaxis protein CheA; Provisional; Region: PRK10547 291112006374 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 291112006375 putative binding surface; other site 291112006376 active site 291112006377 CheY binding; Region: CheY-binding; pfam09078 291112006378 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 291112006379 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 291112006380 ATP binding site; other site 291112006381 Mg2+ binding site; other site 291112006382 G-X-G motif; other site 291112006383 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 291112006384 flagellar motor protein MotB; Validated; Region: motB; PRK09041 291112006385 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 291112006386 ligand binding site; other site 291112006387 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 291112006388 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 291112006389 Flagellar transcriptional activator (FlhC); Region: FlhC; cl05036 291112006390 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 291112006391 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 291112006392 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 291112006393 MgtC family; Region: MgtC; pfam02308 291112006394 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 protein...; Region: CSP_CDS; cd04458 291112006395 DNA binding site 291112006396 RNA-binding motif; other site 291112006397 Extracytoplasmic function sigma factor YlaC; Region: YlaC; pfam10777 291112006398 Dihydroorotase [Nucleotide transport and metabolism]; Region: PyrC; COG0418 291112006399 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 291112006400 active site 291112006401 substrate binding pocket; other site 291112006402 dimer interface; other site 291112006403 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 291112006404 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 291112006405 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; cl09944 291112006406 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...; Region: LuxR_C_like; cd06170 291112006407 DNA binding residues 291112006408 dimerization interface; other site 291112006409 hypothetical protein; Provisional; Region: PRK00142 291112006410 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 291112006411 active site residue 291112006412 DinI-like family; Region: DinI; cl11630 291112006413 lipid A biosynthesis lauroyl acyltransferase; Provisional; Region: PRK08734 291112006414 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 291112006415 putative acyl-acceptor binding pocket; other site 291112006416 inner membrane transporter YhiP; Provisional; Region: PRK10207 291112006417 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 291112006418 Cupin domain; Region: Cupin_2; cl09118 291112006419 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 291112006420 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 291112006421 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 291112006422 dimer interface; other site 291112006423 putative tRNA-binding site; other site 291112006424 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 291112006425 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...; Region: SIS_RpiR; cd05013 291112006426 putative active site; other site 291112006427 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 291112006428 delta-1-pyrroline-5-carboxylate dehydrogenase, group 2, putative; Region: D1pyr5carbox2; TIGR01237 291112006429 tetrameric interface; other site 291112006430 NAD binding site; other site 291112006431 catalytic residues; other site 291112006432 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 291112006433 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 291112006434 PYR/PP interface; other site 291112006435 dimer interface; other site 291112006436 TPP binding site; other site 291112006437 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 291112006438 TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 291112006439 TPP-binding site; other site 291112006440 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 291112006441 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112006442 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 291112006443 Sodium:solute symporter family; Region: SSF; cl00456 291112006444 putative symporter YidK; Provisional; Region: PRK10484 291112006445 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 291112006446 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112006447 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 291112006448 substrate binding site; other site 291112006449 ATP binding site; other site 291112006450 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; cl09108 291112006451 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 291112006452 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 D-arabino-6-...; Region: AP2Ec; cl12060 291112006453 DNA interaction; other site 291112006454 Metal-binding active site; metal-binding site 291112006455 KduI/IolB family; Region: KduI; cl01508 291112006456 CRISPR-associated protein (Cas_Csy4); Region: Cas_Csy4; cl09835 291112006457 CRISPR-associated protein (Cas_Csy3); Region: Cas_Csy3; cl09832 291112006458 CRISPR-associated protein (Cas_Csy2); Region: Cas_Csy2; cl12127 291112006459 CRISPR-associated protein (Cas_Csy1); Region: Cas_Csy1; cl09829 291112006460 CRISPR associated protein Cas1; Region: Cas_Cas1; cl00656 291112006461 CRISPR-associated endonuclease Cas1; Region: cas1; TIGR00287 291112006462 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 291112006463 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 291112006464 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; cl07038 291112006465 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...; Region: TOPRIM_primases; cd01029 291112006466 active site 291112006467 metal-binding site 291112006468 interdomain interaction site; other site 291112006469 D5 N terminal like; Region: D5_N; pfam08706 291112006470 C-terminal domain; Region: primase_Cterm; TIGR01613 291112006471 AntA/AntB antirepressor; Region: AntA; cl01430 291112006472 integrase; Provisional; Region: PRK09692 291112006473 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 291112006474 Int/Topo IB signature motif; other site 291112006475 active site 291112006476 DsrC like protein; Region: DsrC; cl01101 291112006477 Acylphosphatase; Region: Acylphosphatase; cl00551 291112006478 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; cl01548 291112006479 CRISPR-associated protein (Cas_Csy1); Region: Cas_Csy1; cl09829 291112006480 CRISPR-associated helicase Cas3; Region: cas3_yersinia; TIGR02562 291112006481 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 291112006482 CRISPR associated protein Cas1; Region: Cas_Cas1; cl00656 291112006483 CRISPR associated protein Cas1; Region: Cas_Cas1; cl00656 291112006484 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112006485 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 291112006486 active site 291112006487 dimer interfaces; other site 291112006488 catalytic residues; other site 291112006489 DNA helicase IV; Provisional; Region: helD; PRK11054 291112006490 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 291112006491 UvrD/REP helicase; Region: UvrD-helicase; cl14126 291112006492 hypothetical membrane protein, TIGR01666; Region: YCCS 291112006493 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 291112006494 TfoX N-terminal domain; Region: TfoX_N; cl01167 291112006495 TfoX N-terminal domain; Region: TfoX_N; cl01167 291112006496 Cell division inhibitor SulA; Region: SulA; cl01880 291112006497 outer membrane protein A; Reviewed; Region: PRK10808 291112006498 Surface antigen; Region: Surface_Ag_2; cl01155 291112006499 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 291112006500 ligand binding site; other site 291112006501 Organiser of macrodomain of Terminus of chromosome; Region: MatP; cl11476 291112006502 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 291112006503 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 291112006504 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 291112006505 active site 1 291112006506 dimer interface; other site 291112006507 active site 2 291112006508 Protein of unknown function (DUF330); Region: DUF330; cl01135 291112006509 paraquat-inducible protein B; Provisional; Region: PRK10807 291112006510 mce related protein; Region: MCE; pfam02470 291112006511 mce related protein; Region: MCE; pfam02470 291112006512 mce related protein; Region: MCE; pfam02470 291112006513 integral membrane protein, PqiA family; Region: pqiA_fam; TIGR00155 291112006514 Paraquat-inducible protein A; Region: PqiA; pfam04403 291112006515 Paraquat-inducible protein A; Region: PqiA; pfam04403 291112006516 ABC transporter ATPase component; Reviewed; Region: PRK11147 291112006517 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 291112006518 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112006519 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 291112006520 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 291112006521 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 291112006522 THUMP domain; Region: THUMP; cl12076 291112006523 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; cl12011 291112006524 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; cl12011 291112006525 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 291112006526 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 291112006527 MOSC domain; Region: MOSC; pfam03473 291112006528 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 291112006529 catalytic loop; other site 291112006530 iron binding site; other site 291112006531 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 291112006532 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 291112006533 active site 291112006534 TDP-binding site; other site 291112006535 acceptor substrate-binding pocket; other site 291112006536 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 291112006537 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 291112006538 active site 291112006539 TDP-binding site; other site 291112006540 acceptor substrate-binding pocket; other site 291112006541 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 291112006542 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 291112006543 active site 291112006544 TDP-binding site; other site 291112006545 acceptor substrate-binding pocket; other site 291112006546 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 291112006547 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...; Region: DHOD_2_like; cd04738 291112006548 quinone interaction residues; other site 291112006549 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 291112006550 active site 291112006551 catalytic residues; other site 291112006552 FMN binding site; other site 291112006553 substrate binding site; other site 291112006554 aminopeptidase N; Provisional; Region: pepN; PRK14015 291112006555 Peptidase family M1; Region: Peptidase_M1; pfam01433 291112006556 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 291112006557 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting...; Region: PncB_like; cd01401 291112006558 active site 291112006559 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 291112006560 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (...; Region: EcAsnRS_like_N; cd04318 291112006561 putative dimer interface; other site 291112006562 putative anticodon binding site; other site 291112006563 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well...; Region: AsxRS_core; cd00776 291112006564 homodimer interface; other site 291112006565 motif 1; other site 291112006566 motif 2; other site 291112006567 active site 291112006568 motif 3; other site 291112006569 outer membrane protein F; Provisional; Region: PRK10002 291112006570 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface...; Region: gram_neg_porins; cd00342 291112006571 trimer interface; other site 291112006572 eyelet of channel; other site 291112006573 outer membrane protein F; Provisional; Region: PRK10002 291112006574 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface...; Region: gram_neg_porins; cd00342 291112006575 trimer interface; other site 291112006576 eyelet of channel; other site 291112006577 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 291112006578 pyridoxal 5'-phosphate binding site; other site 291112006579 homodimer interface; other site 291112006580 catalytic residue; other site 291112006581 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 291112006582 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 291112006583 Peptidase M15; Region: Peptidase_M15_3; cl01194 291112006584 hypothetical protein; Provisional; Region: PRK10594 291112006585 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 291112006586 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 291112006587 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 291112006588 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 291112006589 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 291112006590 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112006591 Transposase and inactivated derivatives, TnpA family [DNA replication, recombination, and repair]; Region: COG4644 291112006592 PIN domain; Region: PIN; cl09128 291112006593 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; cl02270 291112006594 Transposase; Region: Transposase_9; pfam01548 291112006595 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 291112006596 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 291112006597 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112006598 Walker A motif; other site 291112006599 ATP binding site; other site 291112006600 Walker B motif; other site 291112006601 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 291112006602 Pilin accessory protein (PilO); Region: PAP_PilO; pfam06864 291112006603 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 291112006604 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 291112006605 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 291112006606 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 291112006607 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 291112006608 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 291112006609 PilS N terminal; Region: PilS; pfam08805 291112006610 Protein of unknown function (DUF990); Region: DUF990; cl01496 291112006611 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 291112006612 Protein of unknown function (DUF990); Region: DUF990; cl01496 291112006613 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 291112006614 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112006615 Walker A/P-loop; other site 291112006616 ATP binding site; other site 291112006617 Q-loop/lid; other site 291112006618 ABC transporter signature motif; other site 291112006619 Walker B; other site 291112006620 D-loop; other site 291112006621 H-loop/switch region; other site 291112006622 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; cl12125 291112006623 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 291112006624 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 291112006625 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 291112006626 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; cl12125 291112006627 Phage protein D [General function prediction only]; Region: COG3500; cl12180 291112006628 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 291112006629 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 291112006630 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 291112006631 Phage Tail Collar Domain; Region: Collar; pfam07484 291112006632 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 291112006633 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...; Region: AAA; cd00009 291112006634 Walker A motif; other site 291112006635 ATP binding site; other site 291112006636 Walker B motif; other site 291112006637 Hemopexin-like repeats.; Hemopexin is a heme-binding protein that transports heme to the liver. Hemopexin-like repeats occur in vitronectin and some matrix metalloproteinases family (matrixins). The HX repeats of some matrixins bind tissue inhibitor of...; Region: HX; cl02471 291112006638 Metal binding sites; metal-binding site 291112006639 Fucose-binding lectin II (PA-IIL); Region: PA-IIL; pfam07472 291112006640 hypothetical protein; Provisional; Region: PRK09857 291112006641 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 291112006642 Phd_YefM; Region: PhdYeFM; cl09153 291112006643 cell division protein MukB; Provisional; Region: mukB; PRK04863 291112006644 MukB N-terminal; Region: MukB; pfam04310 291112006645 MukE-like family; Region: MukE; cl11471 291112006646 KicB killing factor; Region: KicB; cl11468 291112006647 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides...; Region: GH20_hexosaminidase; cl02948 291112006648 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 291112006649 S-adenosylmethionine binding site; other site 291112006650 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 291112006651 putative active site; other site 291112006652 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 291112006653 Ligand binding site; other site 291112006654 oligomer interface; other site 291112006655 Trm112p-like protein; Region: Trm112p; cl01066 291112006656 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 291112006657 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 291112006658 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 291112006659 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 291112006660 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 291112006661 Walker A/P-loop; other site 291112006662 ATP binding site; other site 291112006663 Q-loop/lid; other site 291112006664 ABC transporter signature motif; other site 291112006665 Walker B; other site 291112006666 D-loop; other site 291112006667 H-loop/switch region; other site 291112006668 hypothetical protein; Provisional; Region: PRK11539 291112006669 Competence protein; Region: Competence; cl00471 291112006670 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 291112006671 LysE type translocator; Region: LysE; cl00565 291112006672 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 291112006673 S-type Pyocin; Region: Pyocin_S; pfam06958 291112006674 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 higher...; Region: HU_IHF; cd00591 291112006675 IHF dimer interface; other site 291112006676 IHF - DNA interface; other site 291112006677 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 291112006678 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 291112006679 RNA binding site; other site 291112006680 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 291112006681 RNA binding site; other site 291112006682 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 291112006683 RNA binding site; other site 291112006684 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 of...; Region: S1_RPS1_repeat_ec4; cd05689 291112006685 RNA binding site; other site 291112006686 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 291112006687 RNA binding site; other site 291112006688 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 291112006689 RNA binding site; other site 291112006690 cytidylate kinase; Provisional; Region: cmk; PRK00023 291112006691 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 291112006692 CMP-binding site; other site 291112006693 The sites determining sugar specificity; other site 291112006694 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 291112006695 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 5-enolpyruvylshkimate-3-...; Region: EPSP_synthase; cd01556 291112006696 hinge; other site 291112006697 active site 291112006698 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active...; Region: PSAT_like; cd00611 291112006699 homodimer interface; other site 291112006700 substrate-cofactor binding pocket; other site 291112006701 pyridoxal 5'-phosphate binding site; other site 291112006702 catalytic residue; other site 291112006703 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 291112006704 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cd00411 291112006705 tetramer interface; other site 291112006706 active site/substrate binding site 291112006707 YcaO-like family; Region: YcaO; cl09146 291112006708 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 291112006709 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 291112006710 Pyruvate formate lyase 1; Region: PFL1; cd01678 291112006711 coenzyme A binding site; other site 291112006712 active site 291112006713 catalytic residues; other site 291112006714 glycine loop; other site 291112006715 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 291112006716 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; cl14056 291112006717 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; cl14056 291112006718 seryl-tRNA synthetase; Provisional; Region: PRK05431 291112006719 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 291112006720 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 291112006721 dimer interface; other site 291112006722 active site 291112006723 motif 1; other site 291112006724 motif 2; other site 291112006725 motif 3; other site 291112006726 recombination factor protein RarA; Reviewed; Region: PRK13342 291112006727 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...; Region: AAA; cd00009 291112006728 Walker A motif; other site 291112006729 ATP binding site; other site 291112006730 Walker B motif; other site 291112006731 arginine finger; other site 291112006732 MgsA AAA+ ATPase C terminal; Region: MgsA_C; cl13440 291112006733 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 291112006734 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 291112006735 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 291112006736 DNA translocase FtsK; Provisional; Region: PRK10263 291112006737 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]; Region: VirB11; COG0630 291112006738 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112006739 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 291112006740 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 291112006741 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112006742 thioredoxin reductase; Provisional; Region: PRK10262 291112006743 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112006744 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 291112006745 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 291112006746 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112006747 Walker A/P-loop; other site 291112006748 ATP binding site; other site 291112006749 Q-loop/lid; other site 291112006750 ABC transporter signature motif; other site 291112006751 Walker B; other site 291112006752 D-loop; other site 291112006753 H-loop/switch region; other site 291112006754 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 291112006755 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 291112006756 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112006757 Walker A/P-loop; other site 291112006758 ATP binding site; other site 291112006759 Q-loop/lid; other site 291112006760 ABC transporter signature motif; other site 291112006761 Walker B; other site 291112006762 D-loop; other site 291112006763 H-loop/switch region; other site 291112006764 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl01006 291112006765 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 291112006766 rRNA binding site; other site 291112006767 predicted 30S ribosome binding site; other site 291112006768 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 291112006769 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...; Region: AAA; cd00009 291112006770 Walker A motif; other site 291112006771 ATP binding site; other site 291112006772 Walker B motif; other site 291112006773 arginine finger; other site 291112006774 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...; Region: AAA; cd00009 291112006775 Walker A motif; other site 291112006776 ATP binding site; other site 291112006777 Walker B motif; other site 291112006778 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 291112006779 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 291112006780 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 protein...; Region: CSP_CDS; cd04458 291112006781 DNA binding site 291112006782 RNA-binding motif; other site 291112006783 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 291112006784 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 291112006785 Walker A/P-loop; other site 291112006786 ATP binding site; other site 291112006787 Q-loop/lid; other site 291112006788 ABC transporter signature motif; other site 291112006789 Walker B; other site 291112006790 D-loop; other site 291112006791 H-loop/switch region; other site 291112006792 Predicted permease; Region: FtsX; cl11418 291112006793 macrolide transporter subunit MacA; Provisional; Region: PRK11578 291112006794 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 291112006795 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 291112006796 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 291112006797 Walker A/P-loop; other site 291112006798 ATP binding site; other site 291112006799 Q-loop/lid; other site 291112006800 ABC transporter signature motif; other site 291112006801 Walker B; other site 291112006802 D-loop; other site 291112006803 H-loop/switch region; other site 291112006804 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 291112006805 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...; Region: PBPb; cd00134 291112006806 substrate binding pocket; other site 291112006807 membrane-bound complex binding site; other site 291112006808 hinge residues; other site 291112006809 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 291112006810 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...; Region: TM_PBP2; cd06261 291112006811 dimer interface; other site 291112006812 conserved gate region; other site 291112006813 putative PBP binding loops; other site 291112006814 ABC-ATPase subunit interface; other site 291112006815 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 291112006816 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...; Region: TM_PBP2; cd06261 291112006817 dimer interface; other site 291112006818 conserved gate region; other site 291112006819 putative PBP binding loops; other site 291112006820 ABC-ATPase subunit interface; other site 291112006821 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 291112006822 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 291112006823 S-adenosylmethionine binding site; other site 291112006824 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 291112006825 Protein of unknown function (DUF1418); Region: DUF1418; cl11648 291112006826 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 291112006827 GSH binding site; other site 291112006828 catalytic residues; other site 291112006829 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 291112006830 active site 291112006831 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 291112006832 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 291112006833 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 291112006834 Beta-lactamase; Region: Beta-lactamase; cl01009 291112006835 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 291112006836 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 291112006837 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 291112006838 putative C-terminal domain interface; other site 291112006839 putative GSH binding site (G-site); other site 291112006840 putative dimer interface; other site 291112006841 GST_C 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_C_2; cd03180 291112006842 putative N-terminal domain interface; other site 291112006843 putative dimer interface; other site 291112006844 putative substrate binding pocket (H-site); other site 291112006845 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 291112006846 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112006847 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 291112006848 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 291112006849 HisG, C-terminal domain; Region: HisG_C; cl06867 291112006850 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 291112006851 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 oxidation of L-histidinol to L...; Region: Histidinol_dh; cd06572 291112006852 NAD binding site; other site 291112006853 dimerization interface; other site 291112006854 product binding site; other site 291112006855 substrate binding site; other site 291112006856 zinc binding site; other site 291112006857 catalytic residues; other site 291112006858 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 291112006859 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 291112006860 pyridoxal 5'-phosphate binding site; other site 291112006861 homodimer interface; other site 291112006862 catalytic residue; other site 291112006863 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 291112006864 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 291112006865 active site 291112006866 motif I; other site 291112006867 motif II; other site 291112006868 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 291112006869 putative active site pocket; other site 291112006870 4-fold oligomerization interface; other site 291112006871 metal binding residues; metal-binding site 291112006872 3-fold/trimer interface; other site 291112006873 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 291112006874 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 291112006875 putative active site; other site 291112006876 oxyanion strand; other site 291112006877 catalytic triad; other site 291112006878 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 291112006879 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 291112006880 catalytic residues; other site 291112006881 Imidazoleglycerol-phosphate synthase [Amino acid transport and metabolism]; Region: HisF; COG0107 291112006882 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)-formimino-5-; Region: HisF; cd04731 291112006883 substrate binding site; other site 291112006884 glutamase interaction surface; other site 291112006885 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 291112006886 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 291112006887 Phosphoribosyl-ATP pyrophosphohydrolase; Region: PRA-PH; cl00345 291112006888 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 291112006889 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 291112006890 dimer interface; other site 291112006891 active site 291112006892 metal-binding site 291112006893 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 291112006894 putative deacylase active site; other site 291112006895 Protein of unkown function (DUF1881); Region: DUF1881; pfam08964 291112006896 Protein of unkown function (DUF1881); Region: DUF1881; pfam08964 291112006897 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112006898 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 291112006899 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 291112006900 Integral membrane protein TerC family; Region: TerC; cl10468 291112006901 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 291112006902 Transporter associated domain; Region: CorC_HlyC; pfam03471 291112006903 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 291112006904 putative assembly protein; Provisional; Region: PRK10833 291112006905 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 291112006906 trimer interface; other site 291112006907 active site 291112006908 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 291112006909 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage...; Region: UMPK; cd02023 291112006910 ATP-binding site; other site 291112006911 Sugar specificity; other site 291112006912 Pyrimidine base specificity; other site 291112006913 putative ATPase; Provisional; Region: PRK11670 291112006914 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 291112006915 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 291112006916 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 291112006917 active site 291112006918 HIGH motif; other site 291112006919 KMSKS motif; other site 291112006920 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 291112006921 tRNA binding surface; other site 291112006922 anticodon binding site; other site 291112006923 The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human tyrosyl-; Region: tRNA_bindingDomain; cl00320 291112006924 putative tRNA-binding site; other site 291112006925 LrgA family; Region: LrgA; cl00608 291112006926 LrgB-like family; Region: LrgB; cl00596 291112006927 cytidine deaminase; Provisional; Region: PRK09027 291112006928 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 291112006929 active site 291112006930 catalytic motif; other site 291112006931 Zn binding site; other site 291112006932 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 291112006933 active site 291112006934 catalytic motif; other site 291112006935 Zn binding site; other site 291112006936 malate dehydrogenase; Provisional; Region: PRK13529 291112006937 Malic enzyme, N-terminal domain; Region: malic; pfam00390 291112006938 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 291112006939 NAD(P) binding site; other site 291112006940 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 291112006941 putative active site; other site 291112006942 Predicted membrane protein [Function unknown]; Region: COG2311 291112006943 Protein of unknown function (DUF418); Region: DUF418; cl12135 291112006944 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 291112006945 active site 291112006946 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112006947 putative substrate translocation pore; other site 291112006948 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112006949 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 291112006950 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 291112006951 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 291112006952 dimer interface; other site 291112006953 putative functional site; other site 291112006954 putative MPT binding site; other site 291112006955 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 291112006956 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...; Region: ThiF_MoeB_HesA_family; cd00757 291112006957 ATP binding site; other site 291112006958 substrate interface; other site 291112006959 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 291112006960 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112006961 Walker A/P-loop; other site 291112006962 ATP binding site; other site 291112006963 ABC transporter signature motif; other site 291112006964 Walker B; other site 291112006965 D-loop; other site 291112006966 H-loop/switch region; other site 291112006967 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 291112006968 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 291112006969 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 291112006970 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 291112006971 dimer interface; other site 291112006972 active site 291112006973 metal-binding site 291112006974 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 291112006975 Prostaglandin dehydrogenases; Region: PGDH; cd05288 291112006976 NAD(P) binding site; other site 291112006977 substrate binding site; other site 291112006978 dimer interface; other site 291112006979 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 291112006980 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 291112006981 threonine and homoserine efflux system; Provisional; Region: PRK10532 291112006982 EamA-like transporter family; Region: EamA; cl01037 291112006983 Ferritin-like domain; Region: Ferritin; pfam00210 291112006984 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 291112006985 dimerization interface; other site 291112006986 DPS ferroxidase diiron center; other site 291112006987 ion pore; other site 291112006988 PhnA protein; Region: PhnA; pfam03831 291112006989 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 291112006990 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; cl12029 291112006991 helicase superfamily c-terminal domain; Region: HELICc2; cl09250 291112006992 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 291112006993 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...; Region: TST_Repeat_1; cd01448 291112006994 active site residue 291112006995 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 291112006996 active site residue 291112006997 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 291112006998 active site flap/lid 291112006999 nucleophilic elbow; other site 291112007000 catalytic triad; other site 291112007001 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 291112007002 active site flap/lid 291112007003 nucleophilic elbow; other site 291112007004 catalytic triad; other site 291112007005 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 291112007006 active site flap/lid 291112007007 nucleophilic elbow; other site 291112007008 catalytic triad; other site 291112007009 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 291112007010 active site flap/lid 291112007011 nucleophilic elbow; other site 291112007012 catalytic triad; other site 291112007013 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...; Region: DUS_like_FMN; cd02801 291112007014 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 291112007015 FMN binding site; other site 291112007016 active site 291112007017 catalytic residues; other site 291112007018 substrate binding site; other site 291112007019 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 291112007020 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 291112007021 ATP binding site; other site 291112007022 Mg++ binding site; other site 291112007023 motif III; other site 291112007024 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 291112007025 nucleotide binding region; other site 291112007026 ATP-binding site; other site 291112007027 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 291112007028 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 291112007029 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 291112007030 hypothetical protein; Provisional; Region: PRK03598 291112007031 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 291112007032 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency...; Region: ABC_subfamily_A; cd03263 291112007033 Walker A/P-loop; other site 291112007034 ATP binding site; other site 291112007035 Q-loop/lid; other site 291112007036 ABC transporter signature motif; other site 291112007037 Walker B; other site 291112007038 D-loop; other site 291112007039 H-loop/switch region; other site 291112007040 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 291112007041 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112007042 Walker A/P-loop; other site 291112007043 ATP binding site; other site 291112007044 Q-loop/lid; other site 291112007045 ABC transporter signature motif; other site 291112007046 Walker B; other site 291112007047 D-loop; other site 291112007048 H-loop/switch region; other site 291112007049 ABC-2 type transporter; Region: ABC2_membrane; cl11417 291112007050 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 291112007051 ABC-2 type transporter; Region: ABC2_membrane; cl11417 291112007052 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 291112007053 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112007054 putative substrate translocation pore; other site 291112007055 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 291112007056 pyridoxal 5'-phosphate binding pocket; other site 291112007057 catalytic residue; other site 291112007058 BAX inhibitor (BI)-1 like protein family. Mammalian members of this family of small transmembrane proteins have been shown to have an antiapoptotic effect either by stimulating the antiapoptotic function of Bcl-2, a well characterized oncogene, or...; Region: BI-1-like; cd06181 291112007059 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 291112007060 MoaE homodimer interface; other site 291112007061 MoaD interaction; other site 291112007062 active site residues 291112007063 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 291112007064 MoaE interaction surface; other site 291112007065 MoeB interaction surface; other site 291112007066 thiocarboxylated glycine; other site 291112007067 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...; Region: MoaC_PE; cd01420 291112007068 trimer interface; other site 291112007069 dimer interface; other site 291112007070 putative active site; other site 291112007071 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 291112007072 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 291112007073 FeS/SAM binding site; other site 291112007074 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 291112007075 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 291112007076 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 291112007077 phosphate binding site; other site 291112007078 putative substrate binding pocket; other site 291112007079 dimer interface; other site 291112007080 excinuclease ABC subunit B; Provisional; Region: PRK05298 291112007081 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 291112007082 ATP binding site; other site 291112007083 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 291112007084 nucleotide binding region; other site 291112007085 ATP-binding site; other site 291112007086 Ultra-violet resistance protein B; Region: UvrB; pfam12344 291112007087 UvrB/uvrC motif; Region: UVR; pfam02151 291112007088 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 291112007089 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 291112007090 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 291112007091 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 291112007092 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 291112007093 S-adenosylmethionine binding site; other site 291112007094 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 291112007095 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), 8-amino-7-...; Region: KBL_like; cd06454 291112007096 substrate-cofactor binding pocket; other site 291112007097 pyridoxal 5'-phosphate binding site; other site 291112007098 catalytic residue; other site 291112007099 biotin synthetase; Region: bioB; TIGR00433 291112007100 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 291112007101 FeS/SAM binding site; other site 291112007102 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 291112007103 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 291112007104 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 291112007105 inhibitor-cofactor binding pocket; inhibition site 291112007106 pyridoxal 5'-phosphate binding site; other site 291112007107 catalytic residue; other site 291112007108 6-phosphogluconolactonase; Provisional; Region: PRK11028 291112007109 phosphotransferase; Provisional; Region: PRK10530 291112007110 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 291112007111 active site 291112007112 motif I; other site 291112007113 motif II; other site 291112007114 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; cl11391 291112007115 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 291112007116 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112007117 Walker A/P-loop; other site 291112007118 ATP binding site; other site 291112007119 Q-loop/lid; other site 291112007120 ABC transporter signature motif; other site 291112007121 Walker B; other site 291112007122 D-loop; other site 291112007123 H-loop/switch region; other site 291112007124 TOBE domain; Region: TOBE_2; cl01440 291112007125 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...; Region: TM_PBP2; cd06261 291112007126 dimer interface; other site 291112007127 conserved gate region; other site 291112007128 putative PBP binding loops; other site 291112007129 ABC-ATPase subunit interface; other site 291112007130 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 291112007131 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 291112007132 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112007133 TOBE domain; Region: TOBE_2; cl01440 291112007134 TOBE domain; Region: TOBE_2; cl01440 291112007135 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 291112007136 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112007137 Walker A/P-loop; other site 291112007138 ATP binding site; other site 291112007139 Q-loop/lid; other site 291112007140 ABC transporter signature motif; other site 291112007141 Walker B; other site 291112007142 D-loop; other site 291112007143 H-loop/switch region; other site 291112007144 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112007145 Walker A/P-loop; other site 291112007146 ATP binding site; other site 291112007147 Q-loop/lid; other site 291112007148 ABC transporter signature motif; other site 291112007149 Walker B; other site 291112007150 D-loop; other site 291112007151 H-loop/switch region; other site 291112007152 CAAX amino terminal protease family; Region: Abi; cl00558 291112007153 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 291112007154 catalytic core; other site 291112007155 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 291112007156 NeuB family; Region: NeuB; cl00496 291112007157 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 291112007158 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 291112007159 Quinolinate synthetase A protein; Region: NadA; cl00420 291112007160 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 291112007161 Phage Tail Collar Domain; Region: Collar; pfam07484 291112007162 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 291112007164 tol-pal system protein YbgF; Provisional; Region: PRK10803 291112007165 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 291112007166 TPR motif; other site 291112007167 binding surface 291112007168 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 291112007169 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 291112007170 ligand binding site; other site 291112007171 translocation protein TolB; Provisional; Region: tolB; PRK03629 291112007172 TolB amino-terminal domain; Region: TolB_N; pfam04052 291112007173 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 291112007174 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 291112007175 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 291112007176 TolA C-terminal; Region: TolA; pfam06519 291112007177 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 291112007178 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 291112007179 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 291112007180 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...; Region: 4HBT; cd00586 291112007181 active site 291112007182 Cyd operon protein YbgE (Cyd_oper_YbgE); Region: Cyd_oper_YbgE; cl11451 291112007183 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 291112007184 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 291112007185 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 291112007186 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 291112007187 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 291112007188 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a...; Region: Hint; cd00081 291112007189 thioester formation/cholesterol transfer; other site 291112007190 protein-splicing catalytic site; other site 291112007191 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a...; Region: Hint; cd00081 291112007192 thioester formation/cholesterol transfer; other site 291112007193 protein-splicing catalytic site; other site 291112007194 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 291112007195 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112007196 CoA-ligase; Region: Ligase_CoA; pfam00549 291112007197 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 291112007198 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 291112007199 CoA-ligase; Region: Ligase_CoA; pfam00549 291112007200 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 291112007201 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 291112007202 E3 interaction surface; other site 291112007203 lipoyl attachment site; other site 291112007204 e3 binding domain; Region: E3_binding; pfam02817 291112007205 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 291112007206 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 291112007207 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 2-oxoglutarate to succinyl-CoA and carbon dioxide, a key reaction of...; Region: TPP_E1_OGDC_like; cd02016 291112007208 TPP-binding site; other site 291112007209 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 291112007210 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 291112007211 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 291112007212 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112007213 domain; Region: Succ_DH_flav_C; pfam02910 291112007214 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 291112007215 SdhC subunit interface; other site 291112007216 proximal heme binding site; other site 291112007217 cardiolipin binding site; other site 291112007218 Iron-sulfur protein interface; other site 291112007219 proximal quinone binding site; other site 291112007220 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 291112007221 Iron-sulfur protein interface; other site 291112007222 proximal quinone binding site; other site 291112007223 SdhD (CybS) interface; other site 291112007224 proximal heme binding site; other site 291112007225 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 291112007226 dimer interface; other site 291112007227 Citrate synthase; Region: Citrate_synt; pfam00285 291112007228 active site 291112007229 citrylCoA binding site; other site 291112007230 NADH binding; other site 291112007231 cationic pore residues; other site 291112007232 oxalacetate/citrate binding site; other site 291112007233 coenzyme A binding site; other site 291112007234 catalytic triad; other site 291112007235 Uncharacterized conserved protein [Function unknown]; Region: COG0327 291112007236 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 291112007237 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 291112007238 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 291112007239 K+-transporting ATPase, A chain [Inorganic ion transport and metabolism]; Region: KdpA; cl00903 291112007240 Potassium-transporting ATPase A subunit; Region: KdpA; pfam03814 291112007241 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 291112007242 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 291112007243 K+-transporting ATPase, c chain; Region: KdpC; cl00944 291112007244 sensor protein KdpD; Provisional; Region: PRK10490 291112007245 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 291112007246 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 291112007247 Ligand Binding Site; other site 291112007248 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 trans-...; Region: HisKA; cd00082 291112007249 dimer interface; other site 291112007250 phosphorylation site 291112007251 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 291112007252 ATP binding site; other site 291112007253 Mg2+ binding site; other site 291112007254 G-X-G motif; other site 291112007255 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 291112007256 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 291112007257 active site 291112007258 phosphorylation site 291112007259 intermolecular recognition site; other site 291112007260 dimerization interface; other site 291112007261 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...; Region: trans_reg_C; cd00383 291112007262 DNA binding site 291112007263 MAC/Perforin domain; Region: MACPF; cl02616 291112007264 putative sugar phosphatase; Provisional; Region: PRK10976 291112007265 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; cl11391 291112007266 phosphoglucomutase; Validated; Region: PRK07564 291112007267 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 291112007268 active site 291112007269 substrate binding site; other site 291112007270 metal-binding site 291112007271 SeqA protein; Region: SeqA; cl11470 291112007272 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 291112007273 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK01287 291112007274 N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 291112007275 Int/Topo IB signature motif; other site 291112007276 active site 291112007277 CHC2 zinc finger; Region: zf-CHC2; cl02597 291112007278 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 291112007279 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 291112007280 active site 291112007281 metal-binding site 291112007282 interdomain interaction site; other site 291112007283 SMI1 / KNR4 family; Region: SMI1_KNR4; cl01747 291112007284 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK01287 291112007285 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 291112007286 DNA binding site 291112007287 Int/Topo IB signature motif; other site 291112007288 active site 291112007289 CHC2 zinc finger; Region: zf-CHC2; cl02597 291112007290 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 291112007291 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 291112007292 active site 291112007293 metal-binding site 291112007294 interdomain interaction site; other site 291112007295 Uncharacterized conserved protein [Function unknown]; Region: COG4104 291112007296 PAAR motif; Region: PAAR_motif; pfam05488 291112007297 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 291112007298 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 291112007299 RHS protein; Region: RHS; pfam03527 291112007300 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 291112007301 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 291112007302 hypothetical protein; Provisional; Region: PRK10673 291112007303 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; cl12031 291112007304 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 291112007305 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 291112007306 PAAR motif; Region: PAAR_motif; pfam05488 291112007307 PAAR motif; Region: PAAR_motif; pfam05488 291112007308 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 291112007309 RHS Repeat; Region: RHS_repeat; cl11982 291112007310 RHS Repeat; Region: RHS_repeat; cl11982 291112007311 RHS Repeat; Region: RHS_repeat; cl11982 291112007312 RHS Repeat; Region: RHS_repeat; cl11982 291112007313 RHS Repeat; Region: RHS_repeat; cl11982 291112007314 RHS Repeat; Region: RHS_repeat; cl11982 291112007315 HSP20-like domain of unknown function (DUF1813); Region: DUF1813; cl07446 291112007316 Caldesmon; Region: Caldesmon; pfam02029 291112007317 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 291112007318 Peptidase C80 family; Region: Peptidase_C80; pfam11713 291112007319 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 291112007320 Formyl transferase; Region: Formyl_trans_N; cl00395 291112007321 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112007322 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112007323 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112007324 Condensation domain; Region: Condensation; cl09290 291112007325 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112007326 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112007327 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112007328 Condensation domain; Region: Condensation; cl09290 291112007329 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 291112007330 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112007331 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112007332 Condensation domain; Region: Condensation; cl09290 291112007333 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112007334 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112007335 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112007336 Condensation domain; Region: Condensation; cl09290 291112007337 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 291112007338 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112007339 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112007340 Condensation domain; Region: Condensation; cl09290 291112007341 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112007342 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112007343 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112007344 Thioesterase domain; Region: Thioesterase; pfam00975 291112007345 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; cl12031 291112007346 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 291112007347 Predicted amidohydrolase [General function prediction only]; Region: COG0388 291112007348 multimer interface; other site 291112007349 active site 291112007350 catalytic triad; other site 291112007351 dimer interface; other site 291112007352 Protein of unknown function, DUF596; Region: DUF596; cl10492 291112007353 haemagglutination activity domain; Region: Haemagg_act; cl05436 291112007354 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 291112007355 hypothetical protein; Provisional; Region: PHA02515 291112007356 Peptidase C80 family; Region: Peptidase_C80; pfam11713 291112007357 PAS fold; Region: PAS_4; pfam08448 291112007358 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...; Region: LuxR_C_like; cd06170 291112007359 DNA binding residues 291112007360 dimerization interface; other site 291112007361 aspartate aminotransferase; Provisional; Region: PRK06108 291112007362 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 291112007363 pyridoxal 5'-phosphate binding site; other site 291112007364 homodimer interface; other site 291112007365 catalytic residue; other site 291112007366 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 291112007367 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; cl09110 291112007368 Transcriptional regulators [Transcription]; Region: PurR; COG1609 291112007369 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 291112007370 DNA binding site 291112007371 domain linker motif; other site 291112007372 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 291112007373 dimerization interface (closed form); other site 291112007374 ligand binding site; other site 291112007375 PAS fold; Region: PAS_4; pfam08448 291112007376 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...; Region: LuxR_C_like; cd06170 291112007377 DNA binding residues 291112007378 dimerization interface; other site 291112007379 VIP2; A family of actin-ADP-ribosylating toxin. A member of the Bacillus-prodiced vegetative insecticidal proteins (VIPs) possesses high specificity against the major insect pest, corn rootworms, and belongs to a classs of binary toxins and regulators...; Region: VIP2; cl00173 291112007380 active site 291112007381 ADP-ribosylating toxin turn-turn motif; other site 291112007382 PAS fold; Region: PAS_4; pfam08448 291112007383 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...; Region: LuxR_C_like; cl10457 291112007384 PAS fold; Region: PAS_4; pfam08448 291112007385 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...; Region: LuxR_C_like; cd06170 291112007386 DNA binding residues 291112007387 dimerization interface; other site 291112007388 PAS fold; Region: PAS_4; pfam08448 291112007389 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...; Region: LuxR_C_like; cl10457 291112007390 Domain of unknown function (DUF1814); Region: DUF1814; cl00973 291112007391 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 291112007392 Bacterial protein of unknown function (DUF879); Region: DUF879; cl09183 291112007393 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 291112007394 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 291112007395 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 291112007396 Uncharacterized conserved protein [Function unknown]; Region: COG4104 291112007397 PAAR motif; Region: PAAR_motif; pfam05488 291112007398 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 291112007399 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 291112007400 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 291112007401 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 291112007402 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 291112007403 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 291112007404 Protein of unknown function (DUF796); Region: DUF796; cl01226 291112007405 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 291112007406 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 291112007407 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 291112007408 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 291112007409 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 291112007410 Protein of unknown function (DUF796); Region: DUF796; cl01226 291112007411 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 291112007412 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 291112007413 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 291112007414 ligand binding site; other site 291112007415 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 291112007416 Bacterial protein of unknown function (DUF876); Region: DUF876; cl01406 291112007417 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 291112007418 Protein of unknown function (DUF877); Region: DUF877; pfam05943 291112007419 Protein of unknown function (DUF770); Region: DUF770; cl01402 291112007420 PIN domain; Region: PIN; cl09128 291112007421 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 291112007422 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 291112007423 Phd_YefM; Region: PhdYeFM; cl09153 291112007424 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112007425 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112007426 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112007427 Condensation domain; Region: Condensation; cl09290 291112007428 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112007429 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112007430 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112007431 Condensation domain; Region: Condensation; cl09290 291112007432 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 291112007433 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112007434 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112007435 Condensation domain; Region: Condensation; cl09290 291112007436 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112007437 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112007438 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112007439 Condensation domain; Region: Condensation; cl09290 291112007440 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112007441 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112007442 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112007443 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; cl12031 291112007444 Thioesterase domain; Region: Thioesterase; pfam00975 291112007445 LemA family; Region: LemA; cl00742 291112007446 LemA family; Region: LemA; cl00742 291112007447 Fic/DOC family; Region: Fic; cl00960 291112007448 Phd_YefM; Region: PhdYeFM; cl09153 291112007449 hypothetical protein; Provisional; Region: PHA02515 291112007450 TolA protein; Region: tolA_full; TIGR02794 291112007451 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 291112007452 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 291112007453 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; cl12031 291112007454 Peptidase C80 family; Region: Peptidase_C80; pfam11713 291112007455 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 291112007456 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 291112007457 Integrase core domain; Region: rve; cl01316 291112007458 RTX toxin acyltransferase family; Region: HlyC; cl01131 291112007459 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 291112007460 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The...; Region: Peptidase_C39_like; cl00296 291112007461 putative active site; other site 291112007462 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 291112007463 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112007464 Walker A/P-loop; other site 291112007465 ATP binding site; other site 291112007466 Q-loop/lid; other site 291112007467 ABC transporter signature motif; other site 291112007468 Walker B; other site 291112007469 D-loop; other site 291112007470 H-loop/switch region; other site 291112007471 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 291112007472 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 291112007473 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 291112007474 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 291112007475 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112007476 Walker A/P-loop; other site 291112007477 ATP binding site; other site 291112007478 Q-loop/lid; other site 291112007479 ABC transporter signature motif; other site 291112007480 Walker B; other site 291112007481 D-loop; other site 291112007482 H-loop/switch region; other site 291112007483 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 291112007484 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 291112007485 conserved cys residue; other site 291112007486 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 291112007487 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 291112007488 LexA regulated protein; Provisional; Region: PRK11675 291112007489 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 291112007490 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 291112007491 metal binding site 2; metal-binding site 291112007492 putative DNA binding helix; other site 291112007493 metal binding site 1; metal-binding site 291112007494 dimer interface; other site 291112007495 structural Zn2+ binding site; other site 291112007496 Putative carbohydrate binding domain; Region: CHB_HEX; pfam03173 291112007497 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 291112007498 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 291112007499 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_Sm-chitobiase-like; cd06569 291112007500 active site 291112007501 Chitobiase C-terminus domain. Chitobiase (AKA N-acetylglucosaminidase) digests the beta, 1-4 glycosidic bonds of the N-acetylglucosamine (NAG) oligomers found in chitin, an important structural element of fungal cell wall and arthropod exoskeletons...; Region: Chitobiase_C_term; cd02847 291112007502 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 291112007503 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 291112007504 HIGH motif; other site 291112007505 active site 291112007506 nucleotide binding site; other site 291112007507 catalytic core domain of non-descriminating glutamyl-tRNA and glutaminyl-tRNA synthetase; Region: Gln_GluRS_non_core; cd00807 291112007508 KMSKS motif; other site 291112007509 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 291112007510 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 291112007511 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 291112007512 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...; Region: PTS_IIB_glc; cd00212 291112007513 active site turn 291112007514 phosphorylation site 291112007515 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_glc; cd00210 291112007516 HPr interaction site; other site 291112007517 glycerol kinase (GK) interaction site; other site 291112007518 active site 291112007519 phosphorylation site 291112007520 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination...; Region: GlcN6P_deaminase; cd01399 291112007521 active site 291112007522 trimer interface; other site 291112007523 allosteric site; other site 291112007524 active site lid 291112007525 hexamer (dimer of trimers) interface; other site 291112007526 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 291112007527 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 291112007528 active site 291112007529 dimer interface; other site 291112007530 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112007531 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 291112007532 ROK family; Region: ROK; cl09121 291112007533 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 291112007534 Phage Tail Collar Domain; Region: Collar; pfam07484 291112007535 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 291112007536 Baseplate J-like protein; Region: Baseplate_J; cl01294 291112007537 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 291112007538 KilA-N domain; Region: KilA-N; pfam04383 291112007539 ORF6N domain; Region: ORF6N; pfam10543 291112007540 Phage-related protein [Function unknown]; Region: COG5412 291112007541 Protein of unknown function (DUF2669); Region: DUF2669; pfam10876 291112007542 Protein of unknown function (DUF3277); Region: DUF3277; pfam11681 291112007543 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 291112007544 Encapsulating protein for peroxidase; Region: Linocin_M18; cl12047 291112007545 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 291112007546 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3566 291112007547 Septum formation initiator; Region: DivIC; cl11433 291112007548 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 291112007549 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 291112007550 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3567; cl12082 291112007551 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 291112007552 Phage terminase large subunit; Region: Terminase_3; cl12054 291112007553 BRO family, N-terminal domain; Region: Bro-N; pfam02498 291112007554 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 291112007555 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 291112007556 catalytic residues; other site 291112007557 Phage holin family (Lysis protein S); Region: Phage_holin_3; cl04938 291112007558 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 291112007559 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 291112007560 Protein of unknown function (DUF1367); Region: DUF1367; pfam07105 291112007561 Replication protein P; Region: Phage_lambda_P; pfam06992 291112007562 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 291112007563 Bacteriophage CII protein; Region: Phage_CII; pfam05269 291112007564 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 291112007565 non-specific DNA binding site; other site 291112007566 salt bridge; other site 291112007567 sequence-specific DNA binding site; other site 291112007568 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 291112007569 non-specific DNA binding site; other site 291112007570 salt bridge; other site 291112007571 sequence-specific DNA binding site; other site 291112007572 Uncharacterized phage-associated protein [Function unknown]; Region: GepA; COG3600 291112007573 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 291112007574 active site 291112007575 catalytic site; other site 291112007576 substrate binding site; other site 291112007577 Protein of unknown function (DUF3268); Region: DUF3268; pfam11672 291112007578 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 291112007579 Lambda integrase, C-terminal catalytic domain. Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They belong to the...; Region: INT_Lambda_C; cd00800 291112007580 dimer interface; other site 291112007581 Int/Topo IB signature motif; other site 291112007582 active site 291112007583 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 291112007584 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112007585 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 291112007586 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 291112007587 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 291112007588 FeS/SAM binding site; other site 291112007589 TRAM domain; Region: TRAM; cl01282 291112007590 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 291112007591 PhoH-like protein; Region: PhoH; cl12134 291112007592 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 291112007593 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 291112007594 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 291112007595 Transporter associated domain; Region: CorC_HlyC; pfam03471 291112007596 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 291112007597 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 291112007598 putative active site; other site 291112007599 catalytic triad; other site 291112007600 putative dimer interface; other site 291112007601 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 291112007602 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 291112007603 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...; Region: PBPb; cd00134 291112007604 substrate binding pocket; other site 291112007605 membrane-bound complex binding site; other site 291112007606 hinge residues; other site 291112007607 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 291112007608 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...; Region: TM_PBP2; cd06261 291112007609 dimer interface; other site 291112007610 conserved gate region; other site 291112007611 putative PBP binding loops; other site 291112007612 ABC-ATPase subunit interface; other site 291112007613 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...; Region: TM_PBP2; cd06261 291112007614 dimer interface; other site 291112007615 conserved gate region; other site 291112007616 putative PBP binding loops; other site 291112007617 ABC-ATPase subunit interface; other site 291112007618 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 291112007619 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 291112007620 Walker A/P-loop; other site 291112007621 ATP binding site; other site 291112007622 Q-loop/lid; other site 291112007623 ABC transporter signature motif; other site 291112007624 Walker B; other site 291112007625 D-loop; other site 291112007626 H-loop/switch region; other site 291112007627 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 291112007628 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 291112007629 HIGH motif; other site 291112007630 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 291112007631 KMSKS motif; other site 291112007632 active site 291112007633 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 291112007634 tRNA binding surface; other site 291112007635 Rare lipoprotein B family; Region: RplB; cl01125 291112007636 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 291112007637 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 291112007638 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 291112007639 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 291112007640 active site 291112007641 substrate binding site; other site 291112007642 Domain of unknown function DUF143; Region: DUF143; cl00519 291112007643 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 291112007644 penicillin-binding protein 2; Provisional; Region: PRK10795 291112007645 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 291112007646 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 291112007647 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 291112007648 rare lipoprotein A; Provisional; Region: PRK10672 291112007649 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 291112007650 Sporulation related domain; Region: SPOR; cl10051 291112007651 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 291112007652 Beta-lactamase; Region: Beta-lactamase; cl01009 291112007653 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 291112007654 Protein of unknown function (DUF493); Region: DUF493; cl01102 291112007655 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 291112007656 lipoyl synthase; Provisional; Region: PRK05481 291112007657 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 291112007658 FeS/SAM binding site; other site 291112007659 CrcB-like protein; Region: CRCB; cl09114 291112007660 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 protein...; Region: CSP_CDS; cd04458 291112007661 DNA binding site 291112007662 RNA-binding motif; other site 291112007663 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 291112007664 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 291112007665 DNA binding site 291112007666 active site 291112007667 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide...; Region: NrdH; cd02976 291112007668 catalytic residues; other site 291112007669 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 291112007670 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 291112007671 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 291112007672 Class I ribonucleotide reductase; Region: RNR_I; cd01679 291112007673 active site 291112007674 dimer interface; other site 291112007675 catalytic residues; other site 291112007676 effector binding site; other site 291112007677 R2 peptide binding site; other site 291112007678 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 291112007679 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 291112007680 dimer interface; other site 291112007681 putative radical transfer pathway; other site 291112007682 diiron center; other site 291112007683 tyrosyl radical; other site 291112007684 glycine betaine transporter ATP-binding subunit; Provisional; Region: PRK10070 291112007685 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 291112007686 Walker A/P-loop; other site 291112007687 ATP binding site; other site 291112007688 Q-loop/lid; other site 291112007689 ABC transporter signature motif; other site 291112007690 Walker B; other site 291112007691 D-loop; other site 291112007692 H-loop/switch region; other site 291112007693 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 291112007694 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...; Region: TM_PBP2; cd06261 291112007695 dimer interface; other site 291112007696 conserved gate region; other site 291112007697 putative PBP binding loops; other site 291112007698 ABC-ATPase subunit interface; other site 291112007699 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 291112007700 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 291112007701 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 291112007702 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112007703 putative substrate translocation pore; other site 291112007704 AzlC protein; Region: AzlC; cl00570 291112007705 hypothetical protein; Provisional; Region: PRK10408 291112007706 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112007707 Transcriptional regulators [Transcription]; Region: MarR; COG1846 291112007708 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 291112007709 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 291112007710 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112007711 putative substrate translocation pore; other site 291112007712 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112007713 putative methyltransferase; Provisional; Region: PRK10864 291112007714 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 291112007715 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 291112007716 DTW domain; Region: DTW; cl01221 291112007717 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 291112007718 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112007719 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 291112007720 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 291112007721 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 291112007722 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 291112007723 active site 291112007724 signature motif; other site 291112007725 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 291112007726 active site 291112007727 signature motif; other site 291112007728 protein disaggregation chaperone; Provisional; Region: PRK10865 291112007729 Clp amino terminal domain; Region: Clp_N; pfam02861 291112007730 Clp amino terminal domain; Region: Clp_N; pfam02861 291112007731 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...; Region: AAA; cd00009 291112007732 Walker A motif; other site 291112007733 ATP binding site; other site 291112007734 Walker B motif; other site 291112007735 arginine finger; other site 291112007736 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...; Region: AAA; cd00009 291112007737 Walker A motif; other site 291112007738 ATP binding site; other site 291112007739 Walker B motif; other site 291112007740 arginine finger; other site 291112007741 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 291112007742 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 291112007743 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 291112007744 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 291112007745 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 291112007746 RNA binding surface; other site 291112007747 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 291112007748 active site 291112007749 outer membrane protein assembly complex subunit YfiO; Provisional; Region: PRK10866 291112007750 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 A site...; Region: RaiA; cd00552 291112007751 30S subunit binding site; other site 291112007752 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 291112007753 Chorismate mutase type II; Region: CM_2; cl00693 291112007754 Prephenate dehydratase; Region: PDT; pfam00800 291112007755 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 291112007756 putative L-Phe binding site; other site 291112007757 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 291112007758 H-NS histone family; Region: Histone_HNS; pfam00816 291112007759 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 291112007760 Chorismate mutase type II; Region: CM_2; cl00693 291112007761 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112007762 NeuB family; Region: NeuB; cl00496 291112007763 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 291112007764 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 291112007765 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; cl12031 291112007766 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 291112007767 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 291112007768 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 291112007769 RimM N-terminal domain; Region: RimM; pfam01782 291112007770 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to...; Region: PRCH; cl09959 291112007771 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 291112007772 signal recognition particle protein; Provisional; Region: PRK10867 291112007773 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 291112007774 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 291112007775 P loop; other site 291112007776 GTP binding site; other site 291112007777 Signal peptide binding domain; Region: SRP_SPB; pfam02978 291112007778 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 291112007779 hypothetical protein; Provisional; Region: PRK11573 291112007780 Domain of unknown function DUF21; Region: DUF21; pfam01595 291112007781 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 291112007782 Transporter associated domain; Region: CorC_HlyC; pfam03471 291112007783 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 291112007784 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl01099 291112007785 Global regulator protein family; Region: CsrA; cl00670 291112007786 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 291112007787 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 formation...; Region: AlaRS_core; cd00673 291112007788 motif 1; other site 291112007789 active site 291112007790 motif 2; other site 291112007791 motif 3; other site 291112007792 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 291112007793 DHHA1 domain; Region: DHHA1; pfam02272 291112007794 recombinase A; Provisional; Region: recA; PRK09354 291112007795 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 291112007796 hexamer interface; other site 291112007797 Walker A motif; other site 291112007798 ATP binding site; other site 291112007799 Walker B motif; other site 291112007800 Competence-damaged protein; Region: CinA; cl00666 291112007801 lysophospholipid transporter LplT; Provisional; Region: PRK11195 291112007802 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 291112007803 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 291112007804 putative acyl-acceptor binding pocket; other site 291112007805 AMP-binding enzyme; Region: AMP-binding; pfam00501 291112007806 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112007807 shikimate kinase; Reviewed; Region: aroK; PRK00131 291112007808 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...; Region: SK; cd00464 291112007809 ADP binding site; other site 291112007810 magnesium binding site; other site 291112007811 putative shikimate binding site; other site 291112007812 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 291112007813 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 291112007814 putative catalytic cysteine; other site 291112007815 gamma-glutamyl kinase; Provisional; Region: PRK05429 291112007816 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 291112007817 nucleotide binding site; other site 291112007818 homotetrameric interface; other site 291112007819 putative phosphate binding site; other site 291112007820 putative allosteric binding site; other site 291112007821 PUA domain; Region: PUA; cl00607 291112007822 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 291112007823 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 291112007824 Peptidase dimerization domain; Region: M20_dimer; cl09126 291112007825 DNA polymerase IV; Validated; Region: PRK02406 291112007826 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 291112007827 active site 291112007828 DNA binding site 291112007829 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 291112007830 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 291112007831 N-terminal plug; other site 291112007832 ligand-binding site; other site 291112007833 RNA polymerase sigma factor; Provisional; Region: PRK12528 291112007834 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 291112007835 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...; Region: Sigma70_r4; cd06171 291112007836 DNA binding residues 291112007837 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial protein Rv2277c and similar proteins; Region: GDPD_Rv2277c_like; cd08580 291112007838 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 291112007839 putative active site; other site 291112007840 catalytic site; other site 291112007841 putative metal binding site; other site 291112007842 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 291112007843 active site flap/lid 291112007844 nucleophilic elbow; other site 291112007845 catalytic triad; other site 291112007846 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 291112007847 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 291112007848 putative sensor protein; Provisional; Region: PRK09776 291112007849 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 291112007850 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 291112007851 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...; Region: AAA; cd00009 291112007852 Walker A motif; other site 291112007853 ATP binding site; other site 291112007854 Walker B motif; other site 291112007855 arginine finger; other site 291112007856 DsrE/DsrF-like family; Region: DrsE; cl00672 291112007857 Predicted amidohydrolase [General function prediction only]; Region: COG0388 291112007858 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 291112007859 putative active site; other site 291112007860 catalytic triad; other site 291112007861 putative dimer interface; other site 291112007862 Biotin synthase-related enzyme [General function prediction only]; Region: COG2516 291112007863 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 291112007864 FeS/SAM binding site; other site 291112007865 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 291112007866 Coenzyme A binding pocket; other site 291112007867 putative methanogenesis marker protein 2; Region: methan_mark_2; TIGR03267 291112007868 AIR synthase (PurM) related protein, subgroup 3 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like3; cd02192 291112007869 dimerization interface; other site 291112007870 putative ATP binding site; other site 291112007871 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 291112007872 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112007873 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 291112007874 S-adenosylmethionine binding site; other site 291112007875 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 291112007876 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 291112007877 Protein of unknown function (DUF1240); Region: DUF1240; pfam06836 291112007878 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 291112007879 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 291112007880 Protein of unknown function (DUF539); Region: DUF539; cl01129 291112007881 ApbE family; Region: ApbE; cl00643 291112007882 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 291112007883 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 291112007884 catalytic loop; other site 291112007885 iron binding site; other site 291112007886 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+...; Region: NADH_quinone_reductase; cd06188 291112007887 FAD binding pocket; other site 291112007888 FAD binding motif; other site 291112007889 phosphate binding motif; other site 291112007890 beta-alpha-beta structure motif; other site 291112007891 NAD binding pocket; other site 291112007892 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 291112007893 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 291112007894 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 291112007895 FMN-binding domain; Region: FMN_bind; cl01081 291112007896 RnfE family; Region: NQR2_RnfD_RnfE; cl00779 291112007897 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 291112007898 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 291112007899 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 291112007900 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 291112007901 putative active site; other site 291112007902 putative dimer interface; other site 291112007903 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 291112007904 dimer interface; other site 291112007905 active site 291112007906 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 291112007907 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 291112007908 active site 291112007909 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 291112007910 Transcriptional regulator [Transcription]; Region: LysR; COG0583 291112007911 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112007912 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 291112007913 putative effector binding pocket; other site 291112007914 dimerization interface; other site 291112007915 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 291112007916 Cupin domain; Region: Cupin_2; cl09118 291112007917 diaminopimelate decarboxylase; Provisional; Region: PRK11165 291112007918 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 291112007919 active site 291112007920 pyridoxal 5'-phosphate (PLP) binding site; other site 291112007921 substrate binding site; other site 291112007922 catalytic residues; other site 291112007923 dimer interface; other site 291112007924 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 291112007925 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112007926 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 291112007927 dimerization interface; other site 291112007928 transcriptional activator TtdR; Provisional; Region: PRK09801 291112007929 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112007930 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 291112007931 putative effector binding pocket; other site 291112007932 dimerization interface; other site 291112007933 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 291112007934 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 291112007935 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 291112007936 catalytic residues; other site 291112007937 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 291112007938 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 291112007939 glutathione synthetase; Provisional; Region: PRK05246 291112007940 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 291112007941 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 291112007942 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 291112007943 Uncharacterized protein family (UPF0081); Region: UPF0081; cl00525 291112007944 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 291112007945 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112007946 Walker A motif; other site 291112007947 ATP binding site; other site 291112007948 Walker B motif; other site 291112007949 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 291112007950 pyridoxal 5'-phosphate (PLP) binding site; other site 291112007951 catalytic residue; other site 291112007952 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112007953 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 291112007954 YGGT family; Region: YGGT; cl00508 291112007955 YGGT family; Region: YGGT; cl00508 291112007956 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 Ham1...; Region: HAM1; cd00515 291112007957 active site 291112007958 dimerization interface; other site 291112007959 coproporphyrinogen III oxidase; Provisional; Region: PRK05660 291112007960 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 291112007961 FeS/SAM binding site; other site 291112007962 HemN C-terminal region; Region: HemN_C; pfam06969 291112007963 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 291112007964 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 291112007965 putative ligand binding residues; other site 291112007966 Protein of unknown function (DUF2884); Region: DUF2884; cl08135 291112007967 Glutaminase; Region: Glutaminase; cl00907 291112007968 Protein with unknown function (DUF469); Region: DUF469; cl01237 291112007969 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; cl12011 291112007970 adenine DNA glycosylase; Provisional; Region: PRK10880 291112007971 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 291112007972 minor groove reading motif; other site 291112007973 helix-hairpin-helix signature motif; other site 291112007974 substrate binding pocket; other site 291112007975 active site 291112007976 FES domain; Region: FES; smart00525 291112007977 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 291112007978 DNA binding and oxoG recognition site 291112007979 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 291112007980 murein transglycosylase C; Provisional; Region: mltC; PRK11671 291112007981 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 291112007982 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 catalyze...; Region: LT_GEWL; cd00254 291112007983 N-acetyl-D-glucosamine binding site; other site 291112007984 catalytic residue; other site 291112007985 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 291112007986 DNA binding site 291112007987 Int/Topo IB signature motif; other site 291112007988 active site 291112007989 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; cl12011 291112007990 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 include the bacteriophage lambda integrase, the...; Region: INT_REC_C; cd01182 291112007991 DNA binding site 291112007992 Protein of unknown function (DUF1281); Region: DUF1281; pfam06924 291112007993 Protein of unknown function (DUF3085); Region: DUF3085; pfam11284 291112007994 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 291112007995 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 291112007996 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 291112007997 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 291112007998 haemagglutination activity domain; Region: Haemagg_act; cl05436 291112007999 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 291112008000 Possible hemagglutinin (DUF638); Region: DUF638; pfam04829 291112008001 CHC2 zinc finger; Region: zf-CHC2; cl02597 291112008002 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 291112008003 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 291112008004 active site 291112008005 metal-binding site 291112008006 interdomain interaction site; other site 291112008007 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK01287 291112008008 N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 291112008009 Int/Topo IB signature motif; other site 291112008010 active site 291112008011 CHC2 zinc finger; Region: zf-CHC2; cl02597 291112008012 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 291112008013 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 291112008014 active site 291112008015 metal-binding site 291112008016 interdomain interaction site; other site 291112008017 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK01287 291112008018 N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 291112008019 Int/Topo IB signature motif; other site 291112008020 active site 291112008021 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; cl01116 291112008022 Integrase core domain; Region: rve; cl01316 291112008023 Integrase core domain; Region: rve; cl01316 291112008024 Integrase core domain; Region: rve; cl01316 291112008025 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112008026 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 291112008027 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 291112008028 catalytic residues; other site 291112008029 Rho-activating domain of cytotoxic necrotizing factor; Region: CNF1; pfam05785 291112008030 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112008031 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 291112008032 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 291112008033 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...; Region: AAA; cd00009 291112008034 Walker A motif; other site 291112008035 ATP binding site; other site 291112008036 Walker B motif; other site 291112008037 Phage Tail Collar Domain; Region: Collar; pfam07484 291112008038 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 291112008039 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 291112008040 Phage protein D [General function prediction only]; Region: COG3500; cl12180 291112008041 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 291112008042 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; cl12125 291112008043 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 291112008044 Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]; Region: COG3513 291112008045 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 291112008046 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 291112008047 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; cl12125 291112008048 Condensation domain; Region: Condensation; cl09290 291112008049 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112008050 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112008051 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112008052 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112008053 Condensation domain; Region: Condensation; cl09290 291112008054 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112008055 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112008056 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112008057 Condensation domain; Region: Condensation; cl09290 291112008058 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 291112008059 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112008060 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112008061 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112008062 Condensation domain; Region: Condensation; cl09290 291112008063 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 291112008064 Condensation domain; Region: Condensation; cl09290 291112008065 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112008066 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112008067 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112008068 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112008069 Condensation domain; Region: Condensation; cl09290 291112008070 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112008071 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112008072 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112008073 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; cl12031 291112008074 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 291112008075 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 291112008076 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112008077 Flavoprotein; Region: Flavoprotein; cl08021 291112008078 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...; Region: Trunc_globin; cd00454 291112008079 apolar tunnel; other site 291112008080 heme binding site; other site 291112008081 dimerization interface; other site 291112008082 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 291112008083 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112008084 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 291112008085 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 291112008086 active site 291112008087 Condensation domain; Region: Condensation; cl09290 291112008088 Nonribosomal peptide synthase; Region: NRPS; pfam08415 291112008089 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112008090 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 291112008091 Phosphopantetheine attachment site; Region: PP-binding; cl09936 291112008092 Condensation domain; Region: Condensation; cl09290 291112008093 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112008094 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 291112008095 putative substrate translocation pore; other site 291112008096 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 291112008097 dimerization interface; other site 291112008098 putative DNA binding site; other site 291112008099 putative Zn2+ binding site; other site 291112008100 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 291112008101 active site residue 291112008102 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 291112008103 adenosine kinase; Provisional; Region: PTZ00247 291112008104 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase, 2-...; Region: ribokinase_pfkB_like; cl00192 291112008105 substrate binding site; other site 291112008106 ATP binding site; other site 291112008107 Chain length determinant protein; Region: Wzz; cl01623 291112008108 ferrochelatase; Reviewed; Region: hemH; PRK00035 291112008109 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 291112008110 C-terminal domain interface; other site 291112008111 active site 291112008112 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 291112008113 active site 291112008114 N-terminal domain interface; other site 291112008115 adenylate kinase; Reviewed; Region: adk; PRK00279 291112008116 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 291112008117 AMP-binding site; other site 291112008118 ATP-AMP (Ap5A)-binding site; other site 291112008119 heat shock protein 90; Provisional; Region: PRK05218 291112008120 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 291112008121 ATP binding site; other site 291112008122 Mg2+ binding site; other site 291112008123 G-X-G motif; other site 291112008124 recombination protein RecR; Reviewed; Region: recR; PRK00076 291112008125 RecR protein; Region: RecR; pfam02132 291112008126 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 291112008127 putative active site; other site 291112008128 putative metal-binding site; other site 291112008129 tetramer interface; other site 291112008130 Uncharacterized BCR, YbaB family COG0718; Region: DUF149; cl00494 291112008131 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 291112008132 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...; Region: AAA; cd00009 291112008133 Walker A motif; other site 291112008134 ATP binding site; other site 291112008135 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112008136 Walker B motif; other site 291112008137 arginine finger; other site 291112008138 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 291112008139 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 291112008140 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 291112008141 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 291112008142 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 291112008143 Protein of unknown function (DUF2496); Region: DUF2496; cl11670 291112008144 Protein of unknown function (DUF1284); Region: DUF1284; cl01419 291112008145 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 291112008146 BioY family; Region: BioY; cl00560 291112008147 Cobalt transport protein; Region: CbiQ; cl00463 291112008148 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 291112008149 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 291112008150 Walker A/P-loop; other site 291112008151 ATP binding site; other site 291112008152 Q-loop/lid; other site 291112008153 ABC transporter signature motif; other site 291112008154 Walker B; other site 291112008155 D-loop; other site 291112008156 H-loop/switch region; other site 291112008157 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 291112008158 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 291112008159 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 291112008160 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 291112008161 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 291112008162 Protein export membrane protein; Region: SecD_SecF; cl14618 291112008163 Haemolysin expression modulating protein; Region: HHA; cl11501 291112008164 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 291112008165 acyl-CoA thioesterase II; Provisional; Region: PRK10526 291112008166 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 291112008167 active site 291112008168 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 291112008169 catalytic triad; other site 291112008170 dimer interface; other site 291112008171 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 291112008172 Nitrogen regulatory protein P-II; Region: P-II; cl00412 291112008173 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 291112008174 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 291112008175 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide...; Region: ABCC_Glucan_exporter_like; cd03254 291112008176 Walker A/P-loop; other site 291112008177 ATP binding site; other site 291112008178 Q-loop/lid; other site 291112008179 ABC transporter signature motif; other site 291112008180 Walker B; other site 291112008181 D-loop; other site 291112008182 H-loop/switch region; other site 291112008183 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 291112008184 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 291112008185 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112008186 Walker A/P-loop; other site 291112008187 ATP binding site; other site 291112008188 Q-loop/lid; other site 291112008189 ABC transporter signature motif; other site 291112008190 Walker B; other site 291112008191 D-loop; other site 291112008192 H-loop/switch region; other site 291112008193 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 291112008194 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112008195 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 291112008196 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)...; Region: Trp-synth-beta_II; cl00342 291112008197 pyridoxal 5'-phosphate binding pocket; other site 291112008198 catalytic residue; other site 291112008199 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 291112008200 Ligand Binding Site; other site 291112008201 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...; Region: 4HBT; cd00586 291112008202 active site 291112008203 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 291112008204 peptidyl-prolyl cis-trans isomerase (rotamase D); Provisional; Region: PRK10788 291112008205 SurA N-terminal domain; Region: SurA_N; pfam09312 291112008206 PPIC-type PPIASE domain; Region: Rotamase; cl08278 291112008207 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 higher...; Region: HU_IHF; cd00591 291112008208 IHF dimer interface; other site 291112008209 IHF - DNA interface; other site 291112008210 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 291112008211 Found in ATP-dependent protease La (LON); Region: LON; cl01056 291112008212 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...; Region: AAA; cd00009 291112008213 Walker A motif; other site 291112008214 ATP binding site; other site 291112008215 Walker B motif; other site 291112008216 arginine finger; other site 291112008217 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 291112008218 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 291112008219 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 291112008220 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...; Region: AAA; cd00009 291112008221 Walker A motif; other site 291112008222 ATP binding site; other site 291112008223 Walker B motif; other site 291112008224 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 291112008225 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 291112008226 oligomer interface; other site 291112008227 active site residues 291112008228 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 291112008229 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 291112008230 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 291112008231 putative active site; other site 291112008232 trigger factor; Provisional; Region: tig; PRK01490 291112008233 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 291112008234 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 291112008235 BolA-like protein; Region: BolA; cl00386 291112008236 hypothetical protein; Provisional; Region: PRK11627 291112008237 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 291112008238 muropeptide transporter; Reviewed; Region: ampG; PRK11902 291112008239 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112008240 putative substrate translocation pore; other site 291112008241 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 291112008242 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 291112008243 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl10078 291112008244 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 291112008245 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 291112008246 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 291112008247 D-pathway; other site 291112008248 Putative ubiquinol binding site; other site 291112008249 Low-spin heme (heme b) binding site; other site 291112008250 Putative water exit pathway; other site 291112008251 Binuclear center (heme o3/CuB); other site 291112008252 K-pathway; other site 291112008253 Putative proton exit pathway; other site 291112008254 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 291112008255 Subunit I/III interface; other site 291112008256 Subunit III/IV interface; other site 291112008257 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 291112008258 UbiA prenyltransferase family; Region: UbiA; cl00337 291112008259 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112008260 Major Facilitator Superfamily; Region: MFS_1; pfam07690 291112008261 putative substrate translocation pore; other site 291112008262 Protein of unknown function (DUF520); Region: DUF520; cl00723 291112008263 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 291112008264 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112008265 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 291112008266 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 291112008267 conserved cys residue; other site 291112008268 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01269 291112008269 THUMP domain; Region: THUMP; cl12076 291112008270 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 291112008271 Ligand Binding Site; other site 291112008272 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 291112008273 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 291112008274 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 291112008275 substrate binding pocket; other site 291112008276 chain length determination region; other site 291112008277 substrate-Mg2+ binding site; other site 291112008278 catalytic residues; other site 291112008279 aspartate-rich region 1; other site 291112008280 active site lid residues 291112008281 aspartate-rich region 2; other site 291112008282 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 291112008283 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 with important pharmaceutical activity. DXS...; Region: TPP_DXS; cd02007 291112008284 TPP-binding site; other site 291112008285 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 291112008286 PYR/PP interface; other site 291112008287 dimer interface; other site 291112008288 TPP binding site; other site 291112008289 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 291112008290 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...; Region: trans_reg_C; cd00383 291112008291 DNA binding site 291112008292 Initiator Replication protein; Region: Rep_3; cl03080 291112008293 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 291112008294 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which...; Region: SERPIN; cl00137 291112008295 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 291112008296 ligand binding site; other site 291112008297 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 291112008298 FlhB HrpN YscU SpaS Family; Region: Bac_export_2; pfam01312 291112008299 FHIPEP family; Region: FHIPEP; cl07980 291112008300 FHIPEP family; Region: FHIPEP; cl07980 291112008301 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 291112008302 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 291112008303 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 291112008304 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...; Region: trans_reg_C; cd00383 291112008305 DNA binding site 291112008306 Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliI; COG1157 291112008307 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112008308 Walker A motif; other site 291112008309 ATP binding site; other site 291112008310 Walker B motif; other site 291112008311 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 291112008312 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 291112008313 Bacterial type II and III secretion system protein; Region: Secretin; cl02829 291112008314 FliP family; Region: FliP; cl00593 291112008315 Transmembrane protein; Region: Macoilin; pfam09726 291112008316 Beta-lactamase; Region: Beta-lactamase; cl01009 291112008317 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 291112008318 tetramer interfaces; other site 291112008319 binuclear metal-binding site; other site 291112008320 thiamine monophosphate kinase; Provisional; Region: PRK05731 291112008321 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 291112008322 ATP binding site; other site 291112008323 dimerization interface; other site 291112008324 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 291112008325 putative RNA binding site; other site 291112008326 6,7-dimethyl-8-ribityllumazine synthase; Region: DMRL_synthase; cl00317 291112008327 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 291112008328 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 291112008329 catalytic motif; other site 291112008330 Zn binding site; other site 291112008331 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 5,10-...; Region: DHFR; cl00161 291112008332 ATP cone domain; Region: ATP-cone; pfam03477 291112008333 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 291112008334 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 291112008335 Protein export membrane protein; Region: SecD_SecF; cl14618 291112008336 hypothetical protein; Provisional; Region: PRK10629 291112008337 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 291112008338 Protein export membrane protein; Region: SecD_SecF; cl14618 291112008339 Preprotein translocase subunit; Region: YajC; cl00806 291112008340 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 291112008341 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 291112008342 Protein of unknown function, DUF479; Region: DUF479; cl01203 291112008343 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 291112008344 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...; Region: PRX_Typ2cys; cd03015 291112008345 dimer interface; other site 291112008346 decamer (pentamer of dimers) interface; other site 291112008347 catalytic triad; other site 291112008348 peroxidatic and resolving cysteines; other site 291112008349 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 291112008350 Transposase; Region: Transposase_9; pfam01548 291112008351 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 291112008352 putative transposase OrfB; Reviewed; Region: PHA02517 291112008353 Integrase core domain; Region: rve; cl01316 291112008354 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 291112008355 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 291112008356 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 291112008357 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 291112008358 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 291112008359 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 291112008360 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 trans-...; Region: HisKA; cd00082 291112008361 dimer interface; other site 291112008362 phosphorylation site 291112008363 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 291112008364 ATP binding site; other site 291112008365 Mg2+ binding site; other site 291112008366 G-X-G motif; other site 291112008367 transcriptional regulator PhoB; Provisional; Region: PRK10161 291112008368 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 291112008369 active site 291112008370 phosphorylation site 291112008371 intermolecular recognition site; other site 291112008372 dimerization interface; other site 291112008373 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...; Region: trans_reg_C; cd00383 291112008374 DNA binding site 291112008375 exonuclease subunit SbcD; Provisional; Region: PRK10966 291112008376 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 291112008377 active site 291112008378 metal-binding site 291112008379 DNA binding site 291112008380 Type 5 capsule protein repressor C terminal; Region: SbcD_C; pfam12320 291112008381 exonuclease SbcC; Region: sbcc; TIGR00618 291112008382 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112008383 Walker A/P-loop; other site 291112008384 ATP binding site; other site 291112008385 Q-loop/lid; other site 291112008386 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112008387 ABC transporter signature motif; other site 291112008388 Walker B; other site 291112008389 D-loop; other site 291112008390 H-loop/switch region; other site 291112008391 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 291112008392 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 291112008393 putative active site; other site 291112008394 putative metal binding site; other site 291112008395 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 291112008396 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; cl00208 291112008397 CAS motifs; other site 291112008398 active site 291112008399 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 291112008400 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 291112008401 active site 291112008402 metal-binding site 291112008403 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 291112008404 Putative exonuclease, RdgC; Region: RdgC; cl01122 291112008405 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 291112008406 S-adenosylmethionine binding site; other site 291112008407 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 291112008408 Fic family protein [Function unknown]; Region: COG3177 291112008409 Fic/DOC family; Region: Fic; cl00960 291112008410 Glycosyl hydrolases family 39; Region: Glyco_hydro_39; cl10042 291112008411 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 291112008412 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 291112008413 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 291112008414 cystathionine beta-lyase; Provisional; Region: PRK08114 291112008415 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 291112008416 pyridoxal 5'-phosphate binding pocket; other site 291112008417 catalytic residue; other site 291112008418 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 291112008419 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 291112008420 Probable transposase; Region: Transposase_2; pfam01385 291112008421 Transposase IS200 like; Region: Transposase_17; cl00848 291112008422 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 291112008423 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...; Region: Aldo_ket_red; cd06660 291112008424 active site 291112008425 catalytic tetrad; other site 291112008426 repressor protein for FtsI; Provisional; Region: PRK10883 291112008427 Multicopper oxidase; Region: Cu-oxidase; cl11412 291112008428 Multicopper oxidase; Region: Cu-oxidase; cl11412 291112008429 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 291112008430 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 291112008431 putative acyl-acceptor binding pocket; other site 291112008432 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 291112008433 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 in...; Region: TOP4c; cd00187 291112008434 CAP-like domain; other site 291112008435 active site 291112008436 primary dimer interface; other site 291112008437 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 291112008438 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 291112008439 ATP binding site; other site 291112008440 Mg2+ binding site; other site 291112008441 G-X-G motif; other site 291112008442 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 291112008443 anchoring element; other site 291112008444 dimer interface; other site 291112008445 ATP binding site; other site 291112008446 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 291112008447 active site 291112008448 metal-binding site 291112008449 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 291112008450 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; cl12031 291112008451 cyclic 3',5'-adenosine monophosphate phosphodiesterase; Provisional; Region: PRK11148 291112008452 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 291112008453 active site 291112008454 metal-binding site 291112008455 hexamer interface; other site 291112008456 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 291112008457 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...; Region: ADPRase_NUDT5; cd03424 291112008458 dimer interface; other site 291112008459 ADP-ribose binding site; other site 291112008460 active site 291112008461 nudix motif; other site 291112008462 metal-binding site 291112008463 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 291112008464 Outer membrane efflux protein; Region: OEP; pfam02321 291112008465 Outer membrane efflux protein; Region: OEP; pfam02321 291112008466 Protein of unknown function (DUF1190); Region: DUF1190; cl10031 291112008467 Glutathionylspermidine synthase; Region: GSP_synth; cl00503 291112008468 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 291112008469 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 291112008470 putative active site; other site 291112008471 metal-binding site 291112008472 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 291112008473 Protein of unknown function (DUF526); Region: DUF526; cl01115 291112008474 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 291112008475 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 291112008476 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 291112008477 VRR-NUC domain; Region: VRR_NUC; pfam08774 291112008478 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 291112008479 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 291112008480 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 291112008481 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 291112008482 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 291112008483 Uncharacterized conserved protein [Function unknown]; Region: COG4104 291112008484 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 291112008485 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 291112008486 putative ribose interaction site; other site 291112008487 putative ADP binding site; other site 291112008488 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 291112008489 active site 291112008490 nucleotide binding site; other site 291112008491 HIGH motif; other site 291112008492 KMSKS motif; other site 291112008493 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 291112008494 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 291112008495 metal binding triad; other site 291112008496 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 291112008497 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 291112008498 metal binding triad; other site 291112008499 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 291112008500 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 291112008501 putative active site; other site 291112008502 putative metal binding residues; other site 291112008503 signature motif; other site 291112008504 putative triphosphate binding site; other site 291112008505 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH...; Region: NfsA_FRP; cd02146 291112008506 dimer interface; other site 291112008507 FMN binding site; other site 291112008508 NADPH bind site; other site 291112008509 putative signal transduction protein; Provisional; Region: PRK10884 291112008510 Bacterial SH3 domain; Region: SH3_3; cl02551 291112008511 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 291112008512 Nucleotidyltransferase (NT) domain of DNA polymerase beta and similar proteins; Region: NT_Pol-beta-like; cl11966 291112008513 metal binding triad; metal-binding site 291112008514 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 291112008515 Bacitracin resistance protein BacA; Region: BacA; cl00858 291112008516 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines...; Region: DHNA_DHNTPE; cd00534 291112008517 homooctamer interface; other site 291112008518 active site 291112008519 Domain of unknown function (DUF205); Region: DUF205; cl00410 291112008520 putative DNA-binding/iron metalloprotein/AP endonuclease; Reviewed; Region: PRK09604 291112008521 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 291112008522 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 291112008523 DNA primase; Validated; Region: dnaG; PRK05667 291112008524 CHC2 zinc finger; Region: zf-CHC2; cl02597 291112008525 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 291112008526 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 291112008527 active site 291112008528 metal-binding site 291112008529 interdomain interaction site; other site 291112008530 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 291112008531 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 291112008532 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 291112008533 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 291112008534 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 291112008535 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 291112008536 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 291112008537 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 291112008538 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...; Region: Sigma70_r4; cd06171 291112008539 DNA binding residues 291112008540 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 291112008541 DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial and phage integrases, including those similar to phage P22-like integrases, DLP12 and APSE-1; Region: INT_P22_C; cd01192 291112008542 Phage integrase family; Region: Phage_integrase; pfam00589 291112008543 Int/Topo IB signature motif; other site 291112008544 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 291112008545 Protein of unknown function (DUF3268); Region: DUF3268; pfam11672 291112008546 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 291112008547 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 291112008548 active site 291112008549 catalytic site; other site 291112008550 substrate binding site; other site 291112008551 Predicted transcriptional regulator [Transcription]; Region: COG2932 291112008552 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 291112008553 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 (...; Region: S24_LexA-like; cd06529 291112008554 Catalytic site; other site 291112008555 Bacteriophage CII protein; Region: Phage_CII; pfam05269 291112008556 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 291112008557 Replication protein P; Region: Phage_lambda_P; pfam06992 291112008558 Protein of unknown function (DUF1367); Region: DUF1367; pfam07105 291112008559 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 291112008560 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 291112008561 Phage holin family (Lysis protein S); Region: Phage_holin_3; cl04938 291112008562 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 291112008563 catalytic residues; other site 291112008564 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 291112008565 BRO family, N-terminal domain; Region: Bro-N; pfam02498 291112008566 Phage terminase large subunit; Region: Terminase_3; cl12054 291112008567 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3567; cl12082 291112008568 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 291112008569 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 291112008570 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 291112008571 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 291112008572 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3566 291112008573 Septum formation initiator; Region: DivIC; cl11433 291112008574 Encapsulating protein for peroxidase; Region: Linocin_M18; cl12047 291112008575 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 291112008576 Protein of unknown function (DUF3277); Region: DUF3277; pfam11681 291112008577 Protein of unknown function (DUF2669); Region: DUF2669; pfam10876 291112008578 Phage-related protein [Function unknown]; Region: COG5412 291112008579 ORF6N domain; Region: ORF6N; pfam10543 291112008580 Arc-like DNA binding domain; Region: Arc; pfam03869 291112008581 KilA-N domain; Region: KilA-N; pfam04383 291112008582 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 291112008583 Baseplate J-like protein; Region: Baseplate_J; cl01294 291112008584 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 291112008585 Phage Tail Collar Domain; Region: Collar; pfam07484 291112008586 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 291112008587 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; cl12011 291112008588 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 291112008589 ATP binding site; other site 291112008590 putative Mg++ binding site; other site 291112008591 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 291112008592 nucleotide binding region; other site 291112008593 ATP-binding site; other site 291112008594 CRISPR-associated helicase Cas3; Region: cas3_yersinia; TIGR02562 291112008595 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 291112008596 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 291112008597 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 291112008598 Predicted transcriptional regulator [Transcription]; Region: Nlp; cl01357 291112008599 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 291112008600 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 291112008601 S-adenosylmethionine binding site; other site 291112008602 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 291112008603 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and...; Region: IPP_Isomerase; cd02885 291112008604 active site 291112008605 metal-binding site 291112008606 nudix motif; other site 291112008607 Protein of unknown function (DUF535); Region: DUF535; cl01128 291112008608 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 291112008609 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 291112008610 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 291112008611 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 291112008612 active site 291112008613 FMN binding site; other site 291112008614 2,4-decadienoyl-CoA binding site; other site 291112008615 catalytic residue; other site 291112008616 4Fe-4S cluster binding site; other site 291112008617 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 291112008618 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112008619 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 291112008620 Integral membrane protein TerC family; Region: TerC; cl10468 291112008621 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 291112008622 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 291112008623 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 291112008624 DoxX; Region: DoxX; cl00976 291112008625 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112008626 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 291112008627 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 291112008628 dimerization interface; other site 291112008629 Pirin-related protein [General function prediction only]; Region: COG1741 291112008630 Cupin domain; Region: Cupin_2; cl09118 291112008631 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 291112008632 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 291112008633 putative ligand binding site; other site 291112008634 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 291112008635 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 291112008636 dimer interface; other site 291112008637 active site 291112008638 hypothetical protein; Provisional; Region: PRK11023 291112008639 Putative phospholipid-binding domain; Region: BON; cl02771 291112008640 Putative phospholipid-binding domain; Region: BON; cl02771 291112008641 Transglycosylase; Region: Transgly; cl07896 291112008642 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 291112008643 conserved cys residue; other site 291112008644 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 291112008645 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 291112008646 putative active site; other site 291112008647 heme pocket; other site 291112008648 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 trans-...; Region: HisKA; cd00082 291112008649 dimer interface; other site 291112008650 phosphorylation site 291112008651 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 291112008652 ATP binding site; other site 291112008653 Mg2+ binding site; other site 291112008654 G-X-G motif; other site 291112008655 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 291112008656 active site 291112008657 phosphorylation site 291112008658 intermolecular recognition site; other site 291112008659 dimerization interface; other site 291112008660 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 291112008661 putative binding surface; other site 291112008662 active site 291112008663 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 291112008664 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 N-...; Region: GltS; cd00713 291112008665 active site 291112008666 dimer interface; other site 291112008667 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 291112008668 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...; Region: GltS_FMN; cd02808 291112008669 active site 291112008670 FMN binding site; other site 291112008671 substrate binding site; other site 291112008672 3Fe-4S cluster binding site; other site 291112008673 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 291112008674 domain interface; other site 291112008675 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 291112008676 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112008677 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112008678 Stringent starvation protein B; Region: SspB; cl01120 291112008679 stringent starvation protein A; Provisional; Region: sspA; PRK09481 291112008680 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 291112008681 C-terminal domain interface; other site 291112008682 putative GSH binding site (G-site); other site 291112008683 dimer interface; other site 291112008684 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_C_SspA; cd03186 291112008685 dimer interface; other site 291112008686 N-terminal domain interface; other site 291112008687 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 291112008688 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 291112008689 23S rRNA interface; other site 291112008690 L3 interface; other site 291112008691 Predicted ATPase [General function prediction only]; Region: COG1485 291112008692 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 291112008693 serine endoprotease; Provisional; Region: PRK10139 291112008694 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 291112008695 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 C-...; Region: PDZ_serine_protease; cd00987 291112008696 protein binding site; other site 291112008697 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 C-...; Region: PDZ_serine_protease; cd00987 291112008698 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 291112008699 Integrase core domain; Region: rve; cl01316 291112008700 serine endoprotease; Provisional; Region: PRK10898 291112008701 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 291112008702 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 C-...; Region: PDZ_serine_protease; cd00987 291112008703 protein binding site; other site 291112008704 VRR-NUC domain; Region: VRR_NUC; pfam08774 291112008705 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 291112008706 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 291112008707 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 291112008708 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 291112008709 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 291112008710 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 291112008711 hinge; other site 291112008712 active site 291112008713 BolA-like protein; Region: BolA; cl00386 291112008714 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 291112008715 anti sigma factor interaction site; other site 291112008716 regulatory phosphorylation site; other site 291112008717 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 291112008718 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 291112008719 mce related protein; Region: MCE; pfam02470 291112008720 Domain of unknown function DUF140; Region: DUF140; cl00510 291112008721 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 291112008722 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 291112008723 Walker A/P-loop; other site 291112008724 ATP binding site; other site 291112008725 Q-loop/lid; other site 291112008726 ABC transporter signature motif; other site 291112008727 Walker B; other site 291112008728 D-loop; other site 291112008729 H-loop/switch region; other site 291112008730 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 291112008731 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 291112008732 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 291112008733 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 291112008734 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 5-...; Region: SIS_Kpsf; cd05014 291112008735 putative active site; other site 291112008736 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 291112008737 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; cl11391 291112008738 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 291112008739 Protein of unknown function (DUF1239); Region: DUF1239; pfam06835 291112008740 OstA-like protein; Region: OstA; cl00844 291112008741 putative ABC transporter ATP-binding protein YhbG; Provisional; Region: PRK10895 291112008742 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 291112008743 Walker A/P-loop; other site 291112008744 ATP binding site; other site 291112008745 Q-loop/lid; other site 291112008746 ABC transporter signature motif; other site 291112008747 Walker B; other site 291112008748 D-loop; other site 291112008749 H-loop/switch region; other site 291112008750 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 291112008751 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 291112008752 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 291112008753 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 A site...; Region: RaiA; cd00552 291112008754 30S subunit binding site; other site 291112008755 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 291112008756 active site 291112008757 phosphorylation site 291112008758 P-loop ATPase protein family; Region: ATP_bind_2; cl10035 291112008759 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 291112008760 dimerization domain swap beta strand; other site 291112008761 regulatory protein interface; other site 291112008762 active site 291112008763 regulatory phosphorylation site; other site 291112008764 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 291112008765 C-term; Region: GreA_GreB; pfam01272 291112008766 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 291112008767 Sulfatase; Region: Sulfatase; cl10460 291112008768 methionine aminopeptidase; Reviewed; Region: PRK07281 291112008769 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 291112008770 active site 291112008771 Putative modulator of DNA gyrase; Region: PmbA_TldD; cl00398 291112008772 Protein of unknown function (DUF615); Region: DUF615; cl01147 291112008773 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the...; Region: Barstar; cd05142 291112008774 RNAase interaction site; other site 291112008775 microbial_RNases. Ribonucleases (RNAses) cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. The alignment contains fungal RNases (U2, T1, F1, Th, Pb, N1, and Ms) and...; Region: microbial_RNases; cl00212 291112008776 active site 291112008777 Putative modulator of DNA gyrase; Region: PmbA_TldD; cl00398 291112008778 Predicted amidohydrolase [General function prediction only]; Region: COG0388 291112008779 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 291112008780 putative active site; other site 291112008781 catalytic triad; other site 291112008782 dimer interface; other site 291112008783 Predicted membrane protein [Function unknown]; Region: COG3164 291112008784 hypothetical protein; Provisional; Region: PRK10899 291112008785 ribonuclease G; Provisional; Region: PRK11712 291112008786 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 291112008787 homodimer interface; other site 291112008788 oligonucleotide binding site; other site 291112008789 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 291112008790 active site 291112008791 dimer interface; other site 291112008792 rod shape-determining protein MreD; Region: MreD; cl01087 291112008793 rod shape-determining protein MreC; Region: mreC; TIGR00219 291112008794 rod shape-determining protein MreC; Region: MreC; pfam04085 291112008795 rod shape-determining protein MreB; Provisional; Region: PRK13927 291112008796 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 291112008797 ATP binding site; other site 291112008798 profilin binding site; other site 291112008799 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 291112008800 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 291112008801 NADP binding site; other site 291112008802 dimer interface; other site 291112008803 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 291112008804 active site 291112008805 trimer interface; other site 291112008806 dimer interface; other site 291112008807 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 291112008808 carboxyltransferase (CT) interaction site; other site 291112008809 biotinylation site; other site 291112008810 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 291112008811 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 291112008812 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 291112008813 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 291112008814 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112008815 Predicted dehydrogenase [General function prediction only]; Region: COG0579 291112008816 Protein of unknown function (DUF997); Region: DUF997; cl01614 291112008817 Sodium:solute symporter family; Region: SSF; cl00456 291112008818 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 291112008819 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 291112008820 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 291112008821 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...; Region: DUS_like_FMN; cd02801 291112008822 FMN binding site; other site 291112008823 active site 291112008824 catalytic residues; other site 291112008825 substrate binding site; other site 291112008826 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 291112008827 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112008828 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 291112008829 putative substrate translocation pore; other site 291112008830 Cupin domain; Region: Cupin_2; cl09118 291112008831 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 291112008832 delta endotoxin, N-terminal domain; Region: Endotoxin_N; pfam03945 291112008833 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 291112008834 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 291112008835 Walker A/P-loop; other site 291112008836 ATP binding site; other site 291112008837 Q-loop/lid; other site 291112008838 ABC transporter signature motif; other site 291112008839 Walker B; other site 291112008840 D-loop; other site 291112008841 H-loop/switch region; other site 291112008842 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 291112008843 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E...; Region: ABC_Mj1267_LivG_branched; cd03219 291112008844 Walker A/P-loop; other site 291112008845 ATP binding site; other site 291112008846 Q-loop/lid; other site 291112008847 ABC transporter signature motif; other site 291112008848 Walker B; other site 291112008849 D-loop; other site 291112008850 H-loop/switch region; other site 291112008851 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 291112008852 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 291112008853 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 291112008854 TM-ABC transporter signature motif; other site 291112008855 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 291112008856 TM-ABC transporter signature motif; other site 291112008857 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 291112008858 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 291112008859 dimerization interface; other site 291112008860 ligand binding site; other site 291112008861 Acetyltransferase, GNAT family; Region: DUF3749; pfam12568 291112008862 Glycerate kinase family; Region: Gly_kinase; cl00841 291112008863 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 291112008864 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 291112008865 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...; Region: Sigma70_r4; cd06171 291112008866 DNA binding residues 291112008867 Predicted permease; Region: FtsX; cl11418 291112008868 cell division protein FtsE; Provisional; Region: PRK10908 291112008869 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112008870 Walker A/P-loop; other site 291112008871 ATP binding site; other site 291112008872 Q-loop/lid; other site 291112008873 ABC transporter signature motif; other site 291112008874 Walker B; other site 291112008875 D-loop; other site 291112008876 H-loop/switch region; other site 291112008877 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 291112008878 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 291112008879 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 291112008880 P loop; other site 291112008881 GTP binding site; other site 291112008882 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; cl12011 291112008883 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 291112008884 Major Facilitator Superfamily; Region: MFS_1; pfam07690 291112008885 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112008886 putative substrate translocation pore; other site 291112008887 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 291112008888 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 291112008889 metal-binding site 291112008890 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 291112008891 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; cl11391 291112008892 Uncharacterized protein family (UPF0156); Region: RHH_2; cl01448 291112008893 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 291112008894 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 291112008895 CPxP motif; other site 291112008896 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 291112008897 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 291112008898 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 291112008899 dimer interface; other site 291112008900 active site 291112008901 metal-binding site 291112008902 Domain of unknown function DUF29; Region: DUF29; pfam01724 291112008903 Domain of unknown function DUF29; Region: DUF29; pfam01724 291112008904 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 291112008905 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112008906 putative substrate translocation pore; other site 291112008907 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 291112008908 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 291112008909 active site 291112008910 catalytic site; other site 291112008911 metal-binding site 291112008912 lysyl-tRNA synthetase; Provisional; Region: PRK09350 291112008913 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 291112008914 motif 1; other site 291112008915 dimer interface; other site 291112008916 active site 291112008917 motif 2; other site 291112008918 motif 3; other site 291112008919 Fascin-like domain; members include actin-bundling/crosslinking proteins facsin, histoactophilin and singed; identified in sea urchin, Drosophila, Xenopus, rodents, and humans; The fascin-like domain adopts a beta-trefoil topology and contains an...; Region: Fascin; cl00187 291112008920 Fascin-like domain; members include actin-bundling/crosslinking proteins facsin, histoactophilin and singed; identified in sea urchin, Drosophila, Xenopus, rodents, and humans; The fascin-like domain adopts a beta-trefoil topology and contains an...; Region: Fascin; cl00187 291112008921 PKC phosphorylation site; other site 291112008922 Fascin-like domain; members include actin-bundling/crosslinking proteins facsin, histoactophilin and singed; identified in sea urchin, Drosophila, Xenopus, rodents, and humans; The fascin-like domain adopts a beta-trefoil topology and contains an...; Region: Fascin; cl00187 291112008923 PKC phosphorylation site; other site 291112008924 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 291112008925 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112008926 domain; Region: Succ_DH_flav_C; pfam02910 291112008927 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 291112008928 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 291112008929 D-subunit interface; other site 291112008930 Iron-sulfur protein interface; other site 291112008931 proximal quinone binding site; other site 291112008932 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 291112008933 Iron-sulfur protein interface; other site 291112008934 proximal quinone binding site; other site 291112008935 C-subunit interface; other site 291112008936 distal quinone binding site; other site 291112008937 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 291112008938 elongation factor P; Validated; Region: PRK00529 291112008939 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 291112008940 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 291112008941 RNA binding site; other site 291112008942 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 291112008943 RNA binding site; other site 291112008944 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 291112008945 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; cl14056 291112008946 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 291112008947 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 291112008948 ring oligomerisation interface; other site 291112008949 ATP/Mg binding site; other site 291112008950 stacking interactions; other site 291112008951 hinge regions; other site 291112008952 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...; Region: cpn10; cd00320 291112008953 oligomerisation interface; other site 291112008954 mobile loop; other site 291112008955 roof hairpin; other site 291112008956 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 291112008957 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 291112008958 Aspartase; Region: Aspartase; cd01357 291112008959 active sites 291112008960 tetramer interface; other site 291112008962 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; cl09110 291112008963 transmembrane helices; other site 291112008964 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 291112008965 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 291112008966 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 291112008967 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 291112008968 DsbD alpha interface; other site 291112008969 catalytic residues; other site 291112008970 putative transcriptional regulator; Provisional; Region: PRK11640 291112008971 Transposase [DNA replication, recombination, and repair]; Region: COG5421 291112008972 A-factor biosynthesis repeat; Region: AfsA; pfam03756 291112008973 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; cl11391 291112008974 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 291112008975 acetyl-CoA acetyltransferase; Provisional; Region: PRK05790 291112008976 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 291112008977 dimer interface; other site 291112008978 active site 291112008979 Putative transposase DNA-binding domain; Region: Transposase_35; pfam07282 291112008980 Transposase IS200 like; Region: Transposase_17; cl00848 291112008981 EamA-like transporter family; Region: EamA; cl01037 291112008982 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 291112008983 EamA-like transporter family; Region: EamA; cl01037 291112008984 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112008985 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 291112008986 Transcriptional regulator [Transcription]; Region: LysR; COG0583 291112008987 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112008988 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 291112008989 dimerization interface; other site 291112008990 Transcriptional regulator [Transcription]; Region: LysR; COG0583 291112008991 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112008992 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 291112008993 dimerization interface; other site 291112008994 substrate binding pocket; other site 291112008995 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 291112008996 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 291112008997 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 291112008998 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 291112008999 active site 291112009000 phosphorylation site 291112009001 intermolecular recognition site; other site 291112009002 dimerization interface; other site 291112009003 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...; Region: LuxR_C_like; cd06170 291112009004 DNA binding residues 291112009005 dimerization interface; other site 291112009006 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 291112009007 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 connected by an extended linker. The...; Region: HAMP; cl01054 291112009008 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 trans-...; Region: HisKA; cd00082 291112009009 dimer interface; other site 291112009010 phosphorylation site 291112009011 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 291112009012 ATP binding site; other site 291112009013 Mg2+ binding site; other site 291112009014 G-X-G motif; other site 291112009015 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 291112009016 active site 291112009017 phosphorylation site 291112009018 intermolecular recognition site; other site 291112009019 dimerization interface; other site 291112009020 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 291112009021 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521; cl01405 291112009022 Bacterial protein of unknown function (DUF876); Region: DUF876; cl01406 291112009023 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 291112009024 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 291112009025 ligand binding site; other site 291112009026 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 291112009027 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 291112009028 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 291112009029 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 291112009030 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 291112009031 Protein of unknown function (DUF770); Region: DUF770; cl01402 291112009032 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 291112009033 Protein of unknown function (DUF877); Region: DUF877; pfam05943 291112009034 Protein of unknown function (DUF796); Region: DUF796; cl01226 291112009035 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 291112009036 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cl00062 291112009037 hypothetical protein; Provisional; Region: PRK09857 291112009038 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 291112009039 hypothetical protein; Provisional; Region: PRK09857 291112009040 RelB antitoxin; Region: RelB; cl01171 291112009041 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 291112009042 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...; Region: AAA; cd00009 291112009043 Walker A motif; other site 291112009044 ATP binding site; other site 291112009045 Walker B motif; other site 291112009046 arginine finger; other site 291112009047 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...; Region: AAA; cd00009 291112009048 Walker A motif; other site 291112009049 ATP binding site; other site 291112009050 Walker B motif; other site 291112009051 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 291112009052 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 291112009053 Bacterial protein of unknown function (DUF879); Region: DUF879; cl09183 291112009054 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 291112009055 Protein of unknown function (DUF3540); Region: DUF3540; pfam12059 291112009056 hypothetical protein; Validated; Region: PRK09718 291112009057 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 291112009058 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; cl02212 291112009059 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 291112009060 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 291112009061 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 291112009062 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 291112009063 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 291112009064 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 291112009065 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 291112009066 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...; Region: LuxR_C_like; cd06170 291112009067 DNA binding residues 291112009068 dimerization interface; other site 291112009069 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 291112009070 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 291112009071 Coenzyme A binding pocket; other site 291112009072 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112009073 Acyl-CoA reductase LuxC; Region: ALDH_Acyl-CoA-Red_LuxC; cd07080 291112009074 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 291112009075 putative catalytic cysteine; other site 291112009076 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112009077 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112009078 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 291112009079 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 291112009080 ImpA domain protein; Region: DUF3702; pfam12486 291112009081 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 291112009082 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521; cl01405 291112009083 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 291112009084 Bacterial protein of unknown function (DUF879); Region: DUF879; cl09183 291112009085 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 291112009086 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 291112009087 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 291112009088 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 291112009089 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 291112009090 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 291112009091 Uncharacterized conserved protein [Function unknown]; Region: COG4104 291112009092 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 291112009093 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 291112009094 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 291112009095 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 291112009096 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...; Region: AAA; cd00009 291112009097 Walker A motif; other site 291112009098 ATP binding site; other site 291112009099 Walker B motif; other site 291112009100 arginine finger; other site 291112009101 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...; Region: AAA; cd00009 291112009102 Walker A motif; other site 291112009103 ATP binding site; other site 291112009104 Walker B motif; other site 291112009105 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 291112009106 Protein of unknown function (DUF796); Region: DUF796; cl01226 291112009107 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 291112009108 ligand binding site; other site 291112009109 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 291112009110 Bacterial protein of unknown function (DUF876); Region: DUF876; cl01406 291112009111 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 291112009112 Protein of unknown function (DUF877); Region: DUF877; pfam05943 291112009113 Protein of unknown function (DUF770); Region: DUF770; cl01402 291112009114 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112009115 Major Facilitator Superfamily; Region: MFS_1; pfam07690 291112009116 putative substrate translocation pore; other site 291112009117 Helix-turn-helix domain; Region: HTH_14; pfam12323 291112009118 Probable transposase; Region: Transposase_2; pfam01385 291112009119 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 291112009120 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112009121 Peptidase family M48; Region: Peptidase_M48; cl12018 291112009122 Peptidase family M48; Region: Peptidase_M48; cl12018 291112009123 Rhomboid family; Region: Rhomboid; cl11446 291112009124 Hemopexin-like repeats.; Hemopexin is a heme-binding protein that transports heme to the liver. Hemopexin-like repeats occur in vitronectin and some matrix metalloproteinases family (matrixins). The HX repeats of some matrixins bind tissue inhibitor of...; Region: HX; cl02471 291112009125 Metal binding sites; metal-binding site 291112009126 Fucose-binding lectin II (PA-IIL); Region: PA-IIL; pfam07472 291112009127 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 291112009128 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 291112009129 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 291112009130 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 291112009131 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 291112009132 Uncharacterized BCR, COG1636; Region: DUF208; cl00708 291112009133 Surface antigen; Region: Bac_surface_Ag; cl03097 291112009134 Fimbrial protein; Region: Fimbrial; cl01416 291112009135 putative chaperone protein EcpD; Provisional; Region: PRK09926 291112009136 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 291112009137 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 291112009138 Fimbrial Usher protein; Region: Usher; pfam00577 291112009139 Fimbrial protein; Region: Fimbrial; cl01416 291112009140 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 291112009141 MBOAT family; Region: MBOAT; cl00738 291112009142 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri2; cd01829 291112009143 active site 291112009144 catalytic triad; other site 291112009145 oxyanion hole; other site 291112009146 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 291112009147 oxyanion hole; other site 291112009148 SGNH_peri1; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri1; cd01825 291112009149 active site 291112009150 oxyanion hole; other site 291112009151 catalytic triad; other site 291112009152 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; cl09110 291112009153 gluconate transporter; Region: gntP; TIGR00791 291112009154 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 291112009155 Transcriptional regulators [Transcription]; Region: PurR; COG1609 291112009156 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 291112009157 DNA binding site 291112009158 domain linker motif; other site 291112009159 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 291112009160 putative ligand binding site; other site 291112009161 putative dimerization interface; other site 291112009162 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 291112009163 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 291112009164 Cation transport protein; Region: TrkH; cl10514 291112009165 hypothetical protein; Provisional; Region: PRK11568 291112009166 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 291112009167 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 291112009168 proline dipeptidase; Provisional; Region: PRK13607 291112009169 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...; Region: Prolidase; cd01087 291112009170 active site 291112009171 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 291112009172 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 291112009173 substrate binding site; other site 291112009174 oxyanion hole (OAH) forming residues; other site 291112009175 trimer interface; other site 291112009176 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112009177 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 291112009178 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 291112009179 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 291112009180 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 291112009181 dimer interface; other site 291112009182 active site 291112009183 FMN reductase; Validated; Region: fre; PRK08051 291112009184 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD...; Region: flavin_oxioreductase; cd06189 291112009185 FAD binding pocket; other site 291112009186 FAD binding motif; other site 291112009187 phosphate binding motif; other site 291112009188 beta-alpha-beta structure motif; other site 291112009189 NAD binding pocket; other site 291112009190 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 291112009191 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 291112009192 Transcription termination factor nusG; Region: NusG; cl02766 291112009193 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 291112009194 dimer interface; other site 291112009195 allosteric magnesium binding site; other site 291112009196 active site 291112009197 aspartate-rich active site metal binding site; other site 291112009198 Schiff base residues; other site 291112009199 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 291112009200 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 291112009201 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 291112009202 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 291112009203 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 291112009204 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 291112009205 SCP-2 sterol transfer family; Region: SCP2; cl01225 291112009206 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 291112009207 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 291112009208 S-adenosylmethionine binding site; other site 291112009209 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; cl12011 291112009210 DNA recombination protein RmuC; Provisional; Region: PRK10361 291112009211 RmuC family; Region: RmuC; pfam02646 291112009212 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 291112009213 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 291112009214 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 291112009215 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 291112009216 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 291112009217 putative substrate binding pocket; other site 291112009218 AC domain interface; other site 291112009219 catalytic triad; other site 291112009220 AB domain interface; other site 291112009221 interchain disulfide; other site 291112009222 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 291112009223 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 291112009224 putative active site; other site 291112009225 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 291112009226 N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in the production of methionine by...; Region: CIMS_N_terminal_like; cd03312 291112009227 THF binding site; other site 291112009228 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 catalyses the last step in the production of methionine by...; Region: CIMS_C_terminal_like; cd03311 291112009229 substrate binding site; other site 291112009230 THF binding site; other site 291112009231 zinc-binding site; other site 291112009232 Transcriptional regulator [Transcription]; Region: LysR; COG0583 291112009233 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112009234 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 291112009235 putative dimerization interface; other site 291112009236 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 291112009237 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 291112009238 Permease family; Region: Xan_ur_permease; cl00967 291112009239 Major Facilitator Superfamily; Region: MFS_1; pfam07690 291112009240 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112009241 putative substrate translocation pore; other site 291112009242 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 291112009243 Colicin immunity protein / pyocin immunity protein; Region: Colicin_Pyocin; pfam01320 291112009244 Uncharacterized conserved protein [Function unknown]; Region: COG4104 291112009245 PAAR motif; Region: PAAR_motif; pfam05488 291112009246 S-type Pyocin; Region: Pyocin_S; pfam06958 291112009247 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 291112009248 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 291112009249 substrate binding site; other site 291112009250 catalytic Zn binding site; other site 291112009251 NAD binding site; other site 291112009252 structural Zn binding site; other site 291112009253 dimer interface; other site 291112009254 Predicted esterase [General function prediction only]; Region: COG0627 291112009255 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; cl12031 291112009256 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 291112009257 dimer interface; other site 291112009258 ssDNA binding site; other site 291112009259 tetramer (dimer of dimers) interface; other site 291112009260 putative single-stranded DNA-binding protein; Region: PHA01740 291112009261 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 291112009262 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 291112009263 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 291112009264 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 291112009265 Indigoidine synthase A like protein; Region: Indigoidine_A; cl00983 291112009266 hypothetical protein; Provisional; Region: PRK09954 291112009267 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112009268 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 291112009269 substrate binding site; other site 291112009270 ATP binding site; other site 291112009271 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 291112009272 pyridoxal 5'-phosphate binding site; other site 291112009273 homodimer interface; other site 291112009274 catalytic residue; other site 291112009275 alanine racemase; Reviewed; Region: alr; PRK00053 291112009276 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 291112009277 active site 291112009278 pyridoxal 5'-phosphate (PLP) binding site; other site 291112009279 substrate binding site; other site 291112009280 catalytic residues; other site 291112009281 dimer interface; other site 291112009282 replicative DNA helicase; Provisional; Region: PRK08006 291112009283 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 291112009284 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 291112009285 Walker A motif; other site 291112009286 ATP binding site; other site 291112009287 Walker B motif; other site 291112009288 DNA binding loops 291112009289 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 291112009290 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 291112009291 NADP binding site; other site 291112009292 dimer interface; other site 291112009293 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...; Region: DUS_like_FMN; cd02801 291112009294 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 291112009295 FMN binding site; other site 291112009296 active site 291112009297 catalytic residues; other site 291112009298 substrate binding site; other site 291112009299 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 291112009300 active site 291112009301 metal-binding site 291112009302 Predicted transcriptional regulator [Transcription]; Region: Nlp; cl01357 291112009303 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 291112009304 L-Lactate oxidase (LOX) FMN-binding domain. LOX is a member of the family of FMN-containing alpha-hydroxyacid oxidases and catalyzes the oxidation of l-lactate using molecular oxygen to generate pyruvate and H2O2. This family occurs in both...; Region: LOX_like_FMN; cd04737 291112009305 teramer interface; other site 291112009306 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 291112009307 active site 291112009308 FMN binding site; other site 291112009309 catalytic residues; other site 291112009310 YceI-like domain; Region: YceI; cl01001 291112009311 hypothetical protein; Provisional; Region: PRK11380 291112009312 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 291112009313 metal binding site 2; metal-binding site 291112009314 putative DNA binding helix; other site 291112009315 metal binding site 1; metal-binding site 291112009316 dimer interface; other site 291112009317 structural Zn2+ binding site; other site 291112009318 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112009319 LexA repressor; Validated; Region: PRK00215 291112009320 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 (...; Region: S24_LexA-like; cd06529 291112009321 Catalytic site; other site 291112009322 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 291112009323 glycerol-3-phosphate acyltransferase; Validated; Region: PRK04974 291112009324 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 291112009325 putative acyl-acceptor binding pocket; other site 291112009326 UbiA prenyltransferase family; Region: UbiA; cl00337 291112009327 Chorismate lyase; Region: Chor_lyase; cl01230 291112009328 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 291112009329 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 291112009330 active site 291112009331 dimer interface; other site 291112009332 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 291112009333 dimer interface; other site 291112009334 active site 291112009335 aspartate kinase III; Validated; Region: PRK09084 291112009336 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 291112009337 nucleotide binding site; other site 291112009338 substrate binding site; other site 291112009339 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 291112009340 lysine allosteric regulatory site; other site 291112009341 dimer interface; other site 291112009342 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 291112009343 dimer interface; other site 291112009344 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 291112009345 Restriction endonuclease; Region: Mrr_cat; cl00747 291112009346 DNA helicase, putative; Region: TIGR00376 291112009347 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 291112009348 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 291112009349 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl01057 291112009350 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 291112009351 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 291112009352 ATP binding site; other site 291112009353 putative Mg++ binding site; other site 291112009354 HsdM N-terminal domain; Region: HsdM_N; pfam12161 291112009355 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 291112009356 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 291112009357 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 291112009358 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 291112009359 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 291112009360 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...; Region: Sigma70_r4; cd06171 291112009361 DNA binding residues 291112009362 fec operon regulator FecR; Reviewed; Region: PRK09774 291112009363 FecR protein; Region: FecR; pfam04773 291112009364 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 291112009365 Secretin and TonB N terminus short domain; Region: STN; pfam07660 291112009366 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 291112009367 N-terminal plug; other site 291112009368 ligand-binding site; other site 291112009369 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 291112009370 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor...; Region: FhuD; cd01146 291112009371 siderophore binding site; other site 291112009372 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 291112009373 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...; Region: TM_ABC_iron-siderophores_like; cd06550 291112009374 ABC-ATPase subunit interface; other site 291112009375 dimer interface; other site 291112009376 putative PBP binding regions; other site 291112009377 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...; Region: TM_ABC_iron-siderophores_like; cd06550 291112009378 ABC-ATPase subunit interface; other site 291112009379 dimer interface; other site 291112009380 putative PBP binding regions; other site 291112009381 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 291112009382 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 291112009383 Walker A/P-loop; other site 291112009384 ATP binding site; other site 291112009385 Q-loop/lid; other site 291112009386 ABC transporter signature motif; other site 291112009387 Walker B; other site 291112009388 D-loop; other site 291112009389 H-loop/switch region; other site 291112009390 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; cl12011 291112009391 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 291112009392 non-specific DNA binding site; other site 291112009393 salt bridge; other site 291112009394 sequence-specific DNA binding site; other site 291112009395 Restriction endonuclease BamHI; Region: BamHI; pfam02923 291112009396 putative transposase OrfB; Reviewed; Region: PHA02517 291112009397 Integrase core domain; Region: rve; cl01316 291112009398 integrase; Provisional; Region: PRK09692 291112009399 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 291112009400 Domain of unknown function (DUF1814); Region: DUF1814; cl00973 291112009401 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 291112009402 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 291112009403 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 291112009404 MPN+ (JAMM) motif; other site 291112009405 Zinc-binding site; other site 291112009406 Domain of unknown function (DUF932); Region: DUF932; cl12129 291112009407 Predicted transcriptional regulator [Transcription]; Region: COG2378 291112009408 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 291112009409 G1 box; other site 291112009410 GTP/Mg2+ binding site; other site 291112009411 Switch I region; other site 291112009412 G2 box; other site 291112009413 Switch II region; other site 291112009414 G3 box; other site 291112009415 G4 box; other site 291112009416 G5 box; other site 291112009417 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl01302 291112009418 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 291112009419 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 291112009420 HsdM N-terminal domain; Region: HsdM_N; pfam12161 291112009421 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; cl12011 291112009422 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 291112009423 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4694 291112009424 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 291112009425 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl01057 291112009426 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 291112009427 ATP binding site; other site 291112009428 putative Mg++ binding site; other site 291112009429 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 291112009430 Protein of unknown function (DUF511); Region: DUF511; cl01114 291112009431 Protein of unknown function (DUF511); Region: DUF511; cl01114 291112009432 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 291112009433 DNA binding site 291112009434 Int/Topo IB signature motif; other site 291112009435 active site 291112009436 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 291112009437 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl01302 291112009438 Ash protein family; Region: Phage_ASH; pfam10554 291112009439 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 291112009440 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; cl07038 291112009441 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...; Region: TOPRIM_primases; cd01029 291112009442 active site 291112009443 metal-binding site 291112009444 interdomain interaction site; other site 291112009445 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112009446 Walker A motif; other site 291112009447 ATP binding site; other site 291112009448 Walker B motif; other site 291112009449 Predicted transcriptional regulator [Transcription]; Region: Nlp; cl01357 291112009450 integrase; Provisional; Region: PRK09692 291112009451 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 291112009452 Int/Topo IB signature motif; other site 291112009453 active site 291112009454 Beta-lactamase; Region: Beta-lactamase; cl01009 291112009455 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; cl12074 291112009456 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; cl12074 291112009457 leucyl aminopeptidase; Provisional; Region: PRK00913 291112009458 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...; Region: Peptidase_M17; cd00433 291112009459 interface (dimer of trimers); other site 291112009460 Substrate-binding/catalytic site; other site 291112009461 Zn-binding sites; other site 291112009462 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 291112009463 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 291112009464 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 291112009465 HIGH motif; other site 291112009466 active site 291112009467 nucleotide binding site; other site 291112009468 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 291112009469 active site 291112009470 KMSKS motif; other site 291112009471 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 291112009472 tRNA binding surface; other site 291112009473 anticodon binding site; other site 291112009474 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 291112009475 putative transposase OrfB; Reviewed; Region: PHA02517 291112009476 Integrase core domain; Region: rve; cl01316 291112009477 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 291112009478 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...; Region: PBPb; cd00134 291112009479 substrate binding pocket; other site 291112009480 membrane-bound complex binding site; other site 291112009481 hinge residues; other site 291112009482 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...; Region: TM_PBP2; cd06261 291112009483 dimer interface; other site 291112009484 conserved gate region; other site 291112009485 putative PBP binding loops; other site 291112009486 ABC-ATPase subunit interface; other site 291112009487 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 291112009488 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 291112009489 Walker A/P-loop; other site 291112009490 ATP binding site; other site 291112009491 Q-loop/lid; other site 291112009492 ABC transporter signature motif; other site 291112009493 Walker B; other site 291112009494 D-loop; other site 291112009495 H-loop/switch region; other site 291112009496 cystine transporter subunit; Provisional; Region: PRK11260 291112009497 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...; Region: PBPb; cd00134 291112009498 substrate binding pocket; other site 291112009499 membrane-bound complex binding site; other site 291112009500 hinge residues; other site 291112009501 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 291112009502 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112009503 LysE type translocator; Region: LysE; cl00565 291112009504 Protein of unknown function (DUF1260); Region: DUF1260; cl01170 291112009505 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 291112009506 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 291112009507 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 291112009508 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 291112009509 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 291112009510 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 291112009511 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 291112009512 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 291112009513 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 291112009514 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 291112009515 homotrimer interaction site; other site 291112009516 putative active site; other site 291112009517 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 291112009518 ATP cone domain; Region: ATP-cone; pfam03477 291112009519 Class III ribonucleotide reductase; Region: RNR_III; cd01675 291112009520 effector binding site; other site 291112009521 active site 291112009522 Zn binding site; other site 291112009523 glycine loop; other site 291112009524 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 291112009525 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 291112009526 FeS/SAM binding site; other site 291112009527 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 291112009528 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 291112009529 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 291112009530 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 291112009531 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 291112009532 Coenzyme A binding pocket; other site 291112009533 SCP-2 sterol transfer family; Region: SCP2; cl01225 291112009534 UbiA prenyltransferase family; Region: UbiA; cl00337 291112009535 Class I hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classI; cd00643 291112009536 3-hydroxy-3-methylglutaryl Coenzyme A reductase, hydroxymethylglutaryl-CoA reductase (NADP); Region: HMG_CoA_R_NADP; TIGR00533 291112009537 tetramerization interface; other site 291112009538 substrate binding pocket; other site 291112009539 catalytic residues; other site 291112009540 inhibitor binding sites; inhibition site 291112009541 NADP(H) binding site; other site 291112009542 Phosphotransferase enzyme family; Region: APH; pfam01636 291112009543 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 291112009544 substrate binding site; other site 291112009545 phosphoenolpyruvate synthase; Validated; Region: PRK06241 291112009546 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 291112009547 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 291112009548 peptide synthase; Provisional; Region: PRK09274 291112009549 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112009550 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112009551 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 291112009552 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 291112009553 ABC-2 type transporter; Region: ABC2_membrane; cl11417 291112009554 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 291112009555 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 291112009556 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 291112009557 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 291112009558 Histidine kinase; Region: His_kinase; pfam06580 291112009559 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 291112009560 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 291112009561 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 291112009562 active site 291112009563 phosphorylation site 291112009564 intermolecular recognition site; other site 291112009565 dimerization interface; other site 291112009566 LytTr DNA-binding domain; Region: LytTR; cl04498 291112009567 Carbon starvation protein CstA; Region: CstA; cl00856 291112009568 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 291112009569 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 291112009570 ATP binding site; other site 291112009571 Mg++ binding site; other site 291112009572 motif III; other site 291112009573 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 291112009574 nucleotide binding region; other site 291112009575 ATP-binding site; other site 291112009576 DbpA RNA binding domain; Region: DbpA; pfam03880 291112009577 lipoprotein NlpI; Provisional; Region: PRK11189 291112009578 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 291112009579 binding surface 291112009580 TPR motif; other site 291112009581 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 291112009582 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 291112009583 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 291112009584 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 291112009585 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 291112009586 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 291112009587 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 291112009588 putative nucleic acid binding region; other site 291112009589 G-X-X-G motif; other site 291112009590 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 291112009591 RNA binding site; other site 291112009592 domain interface; other site 291112009593 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...; Region: Ribosomal_S15p_S13e; cd00353 291112009594 16S/18S rRNA binding site; other site 291112009595 S13e-L30e interaction site; other site 291112009596 25S rRNA binding site; other site 291112009597 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 291112009598 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of...; Region: PseudoU_synth_EcTruB; cd02573 291112009599 RNA binding site; other site 291112009600 active site 291112009601 Ribosome-binding factor A; Region: RBFA; cl00542 291112009602 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 291112009603 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 291112009604 translation initiation factor IF-2; Region: IF-2; TIGR00487 291112009605 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 291112009606 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases...; Region: IF2_eIF5B; cd01887 291112009607 G1 box; other site 291112009608 putative GEF interaction site; other site 291112009609 GTP/Mg2+ binding site; other site 291112009610 Switch I region; other site 291112009611 G2 box; other site 291112009612 G3 box; other site 291112009613 Switch II region; other site 291112009614 G4 box; other site 291112009615 G5 box; other site 291112009616 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...; Region: IF2_mtIF2_II; cd03702 291112009617 Translation-initiation factor 2; Region: IF-2; pfam11987 291112009618 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...; Region: mtIF2_IVc; cd03692 291112009619 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 291112009620 NusA N-terminal domain; Region: NusA_N; pfam08529 291112009621 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...; Region: S1_NusA; cd04455 291112009622 RNA binding site; other site 291112009623 homodimer interface; other site 291112009624 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 291112009625 G-X-X-G motif; other site 291112009626 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 291112009627 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 291112009628 hypothetical protein; Reviewed; Region: PRK00092 291112009629 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 291112009630 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 291112009631 Sm1 motif; other site 291112009632 predicted subunit interaction site; other site 291112009633 RNA binding pocket; other site 291112009634 Sm2 motif; other site 291112009635 Preprotein translocase SecG subunit; Region: SecG; cl09123 291112009636 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 291112009637 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 UDP-N-...; Region: GlmM; cd05802 291112009638 active site 291112009639 substrate binding site; other site 291112009640 metal-binding site 291112009641 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 291112009642 substrate binding pocket; other site 291112009643 dimer interface; other site 291112009644 inhibitor binding site; inhibition site 291112009645 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 291112009646 FtsH Extracellular; Region: FtsH_ext; pfam06480 291112009647 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...; Region: AAA; cd00009 291112009648 Walker A motif; other site 291112009649 ATP binding site; other site 291112009650 Walker B motif; other site 291112009651 arginine finger; other site 291112009652 Peptidase family M41; Region: Peptidase_M41; pfam01434 291112009653 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 291112009654 S-adenosylmethionine binding site; other site 291112009655 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 291112009656 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 291112009657 domain; Region: GreA_GreB_N; pfam03449 291112009658 C-term; Region: GreA_GreB; pfam01272 291112009659 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl03453 291112009660 GTPase ObgE; Reviewed; Region: obgE; PRK12298 291112009661 GTP1/OBG; Region: GTP1_OBG; pfam01018 291112009662 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 291112009663 G1 box; other site 291112009664 GTP/Mg2+ binding site; other site 291112009665 Switch I region; other site 291112009666 G2 box; other site 291112009667 G3 box; other site 291112009668 Switch II region; other site 291112009669 G4 box; other site 291112009670 G5 box; other site 291112009671 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 291112009672 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 291112009673 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 291112009674 substrate binding pocket; other site 291112009675 chain length determination region; other site 291112009676 substrate-Mg2+ binding site; other site 291112009677 catalytic residues; other site 291112009678 aspartate-rich region 1; other site 291112009679 active site lid residues 291112009680 aspartate-rich region 2; other site 291112009681 Mu DNA-binding domain; Region: Mu_DNA_bind; pfam02316 291112009682 Mu DNA-binding domain; Region: Mu_DNA_bind; pfam02316 291112009683 Predicted transcriptional regulator [Transcription]; Region: Nlp; cl01357 291112009684 malate dehydrogenase; Provisional; Region: PRK05086 291112009685 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 291112009686 NAD binding site; other site 291112009687 dimerization interface; other site 291112009688 Substrate binding site; other site 291112009689 arginine repressor; Provisional; Region: PRK05066 291112009690 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 291112009691 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 291112009692 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 291112009693 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 291112009694 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 291112009695 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 291112009696 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1,7...; Region: FBPase; cd00354 291112009697 AMP binding site; other site 291112009698 metal-binding site 291112009699 active site 291112009700 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 291112009701 dimer interface; other site 291112009702 substrate binding site; other site 291112009703 metal binding sites; metal-binding site 291112009704 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 291112009705 putative active site pocket; other site 291112009706 dimerization interface; other site 291112009707 putative catalytic residue; other site 291112009708 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 291112009709 Family of unknown function (DUF490); Region: DUF490; pfam04357 291112009710 Family of unknown function (DUF490); Region: DUF490; pfam04357 291112009711 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 291112009712 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 291112009713 Surface antigen; Region: Bac_surface_Ag; cl03097 291112009714 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 291112009715 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 291112009716 Domain of unknown function DUF21; Region: DUF21; pfam01595 291112009717 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 291112009718 Transporter associated domain; Region: CorC_HlyC; pfam03471 291112009719 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 291112009720 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; cl01158 291112009721 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 cysteine...; Region: CysQ; cd01638 291112009722 active site 291112009723 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 291112009724 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 291112009725 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 291112009726 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 291112009727 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...; Region: LuxR_C_like; cd06170 291112009728 DNA binding residues 291112009729 argininosuccinate lyase; Provisional; Region: PRK02186 291112009730 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 291112009731 H+ Antiporter protein; Region: 2A0121; TIGR00900 291112009732 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112009733 putative substrate translocation pore; other site 291112009734 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 291112009735 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 291112009736 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 291112009737 Amidinotransferase; Region: Amidinotransf; cl12043 291112009738 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 291112009739 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 291112009740 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 291112009741 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 291112009742 dimer interface; other site 291112009743 pyridoxal 5'-phosphate binding site; other site 291112009744 catalytic residue; other site 291112009745 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 291112009746 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 291112009747 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 291112009748 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 291112009749 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 291112009750 dimer interface; other site 291112009751 ssDNA binding site; other site 291112009752 tetramer (dimer of dimers) interface; other site 291112009753 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 291112009754 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 291112009755 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 291112009756 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 291112009757 exoribonuclease R; Provisional; Region: PRK11642 291112009758 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 291112009759 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 291112009760 RNB domain; Region: RNB; pfam00773 291112009761 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 play an...; Region: S1_RNase_R; cd04471 291112009762 RNA binding site; other site 291112009763 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112009764 rrf2 family protein (putative transcriptional regulator); Region: rrf2_super; TIGR00738 291112009765 adenylosuccinate synthetase; Provisional; Region: PRK01117 291112009766 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 r-...; Region: AdSS; cd03108 291112009767 GDP-binding site; other site 291112009768 ACT binding site; other site 291112009769 IMP binding site; other site 291112009770 FtsH protease regulator HflC; Provisional; Region: PRK11029 291112009771 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 291112009772 FtsH protease regulator HflK; Provisional; Region: PRK10930 291112009773 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 291112009774 putative GTPase HflX; Provisional; Region: PRK11058 291112009775 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 291112009776 G1 box; other site 291112009777 GTP/Mg2+ binding site; other site 291112009778 Switch I region; other site 291112009779 G2 box; other site 291112009780 G3 box; other site 291112009781 Switch II region; other site 291112009782 G4 box; other site 291112009783 G5 box; other site 291112009784 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 291112009785 Sm1 motif; other site 291112009786 D3 - B interaction site; other site 291112009787 D1 - D2 interaction site; other site 291112009788 Hfq - Hfq interaction site; other site 291112009789 RNA binding pocket; other site 291112009790 Sm2 motif; other site 291112009791 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 291112009792 IPP transferase; Region: IPPT; cl00403 291112009793 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 291112009794 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 291112009795 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 291112009796 ATP binding site; other site 291112009797 MutL C terminal dimerization domain; Region: MutL_C; cl07336 291112009798 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 291112009799 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 291112009800 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 291112009801 active site 291112009802 metal-binding site 291112009803 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 291112009804 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 291112009805 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 291112009806 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 291112009807 putative active site; other site 291112009808 putative substrate binding site; other site 291112009809 catalytic site; other site 291112009810 dimer interface; other site 291112009811 ribosome-associated GTPase; Reviewed; Region: PRK12288 291112009812 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence...; Region: YjeQ_engC; cd01854 291112009813 GTPase/OB domain interface; other site 291112009814 GTPase/Zn-binding domain interface; other site 291112009815 GTP/Mg2+ binding site; other site 291112009816 G4 box; other site 291112009817 G5 box; other site 291112009818 G1 box; other site 291112009819 Switch I region; other site 291112009820 G2 box; other site 291112009821 G3 box; other site 291112009822 Switch II region; other site 291112009823 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 291112009824 hypothetical protein; Provisional; Region: PRK10929 291112009825 Mechanosensitive ion channel; Region: MS_channel; pfam00924 291112009826 Uncharacterized conserved protein [Function unknown]; Region: COG4104 291112009827 Bacterial protein of unknown function (DUF879); Region: DUF879; cl09183 291112009828 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 291112009829 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 291112009830 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 291112009831 Uncharacterized conserved protein [Function unknown]; Region: COG4104 291112009832 Uncharacterized conserved protein [Function unknown]; Region: COG4104 291112009833 Uncharacterized conserved protein [Function unknown]; Region: COG4104 291112009834 Phd_YefM; Region: PhdYeFM; cl09153 291112009835 putative sugar phosphatase; Provisional; Region: PRK10976 291112009836 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 291112009837 active site 291112009838 motif I; other site 291112009839 motif II; other site 291112009840 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; cl11391 291112009841 lysophospholipase L2; Provisional; Region: PRK10749 291112009842 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; cl12031 291112009843 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; cl12031 291112009844 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 291112009845 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 291112009846 ATP binding site; other site 291112009847 putative Mg++ binding site; other site 291112009848 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 291112009849 nucleotide binding region; other site 291112009850 ATP-binding site; other site 291112009851 RQC domain; Region: RQC; pfam09382 291112009852 HRDC domain; Region: HRDC; cl02578 291112009853 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 291112009854 CoenzymeA binding site; other site 291112009855 subunit interaction site; other site 291112009856 PHB binding site; other site 291112009857 Predicted permeases [General function prediction only]; Region: RarD; COG2962 291112009858 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 291112009859 CorA-like Mg2+ transporter protein; Region: CorA; cl00459 291112009860 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 291112009861 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 291112009862 UvrD/REP helicase; Region: UvrD-helicase; cl14126 291112009863 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; cl11391 291112009864 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 291112009865 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 291112009866 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 291112009867 DNA binding site 291112009868 Int/Topo IB signature motif; other site 291112009869 active site 291112009870 Protein of unknown function, DUF484; Region: DUF484; cl01228 291112009871 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 291112009872 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 291112009873 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 291112009874 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 291112009875 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate in...; Region: Frataxin; cd00503 291112009876 putative iron binding site; other site 291112009877 Adenylate cyclase, class-I; Region: Adenylate_cycl; cl01168 291112009878 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 291112009879 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 291112009880 domain interfaces; other site 291112009881 active site 291112009882 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 291112009883 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...; Region: HemD; cd06578 291112009884 active site 291112009885 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 291112009886 HemX; Region: HemX; pfam04375 291112009887 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 291112009888 HemY protein N-terminus; Region: HemY_N; pfam07219 291112009889 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 291112009890 Amino acid permease; Region: AA_permease; pfam00324 291112009891 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 291112009892 WzyE protein; Region: WzyE; cl11643 291112009893 4-alpha-L-fucosyltransferase (Fuc4NAc transferase); Region: Fuc4NAc_transf; cl07929 291112009894 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 291112009895 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 291112009896 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 291112009897 inhibitor-cofactor binding pocket; inhibition site 291112009898 pyridoxal 5'-phosphate binding site; other site 291112009899 catalytic residue; other site 291112009900 TDP-fucosamine acetyltransferase; Provisional; Region: PRK10975 291112009901 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 291112009902 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 291112009903 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 291112009904 substrate binding site; other site 291112009905 tetramer interface; other site 291112009906 dTDP-glucose 4,6-dehydratase; Provisional; Region: PRK10217 291112009907 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112009908 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 291112009909 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 291112009910 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 291112009911 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 291112009912 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 291112009913 active site 291112009914 homodimer interface; other site 291112009915 Chain length determinant protein; Region: Wzz; cl01623 291112009916 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 291112009917 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 291112009918 Mg++ binding site; other site 291112009919 putative catalytic motif; other site 291112009920 substrate binding site; other site 291112009921 transcription termination factor Rho; Provisional; Region: rho; PRK09376 291112009922 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 291112009923 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...; Region: Rho_CSD; cd04459 291112009924 RNA binding site; other site 291112009925 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...; Region: rho_factor; cd01128 291112009926 multimer interface; other site 291112009927 Walker A motif; other site 291112009928 ATP binding site; other site 291112009929 Walker B motif; other site 291112009930 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 291112009931 catalytic residues; other site 291112009932 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 291112009933 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 291112009934 ATP binding site; other site 291112009935 Mg++ binding site; other site 291112009936 motif III; other site 291112009937 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 291112009938 nucleotide binding region; other site 291112009939 ATP-binding site; other site 291112009940 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 291112009941 exopolyphosphatase; Region: exo_poly_only; TIGR03706 291112009942 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 291112009943 UvrD/REP helicase; Region: UvrD-helicase; cl14126 291112009944 UvrD/REP helicase; Region: UvrD-helicase; cl14126 291112009945 ketol-acid reductoisomerase; Validated; Region: PRK05225 291112009946 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112009947 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 291112009948 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 291112009949 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112009950 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 291112009951 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 291112009952 putative dimerization interface; other site 291112009953 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 291112009954 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 291112009955 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112009956 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 291112009957 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 291112009958 trimerization site; other site 291112009959 active site 291112009960 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 291112009961 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 291112009962 pyridoxal 5'-phosphate binding pocket; other site 291112009963 catalytic residue; other site 291112009964 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 291112009965 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 291112009966 dimer interface; other site 291112009967 active site 291112009968 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 291112009969 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112009970 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 291112009971 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 291112009972 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 291112009973 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112009974 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112009975 threonine dehydratase; Reviewed; Region: PRK09224 291112009976 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 291112009977 tetramer interface; other site 291112009978 pyridoxal 5'-phosphate binding site; other site 291112009979 catalytic residue; other site 291112009980 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 291112009981 putative Ile/Val binding site; other site 291112009982 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 291112009983 putative Ile/Val binding site; other site 291112009984 Dehydratase family; Region: ILVD_EDD; cl00340 291112009985 dihydroxy-acid dehydratase; Region: ilvD; TIGR00110 291112009986 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 alpha-...; Region: BCAT_beta_family; cd01557 291112009987 homodimer interface; other site 291112009988 substrate-cofactor binding pocket; other site 291112009989 Aminotransferase class IV; Region: Aminotran_4; pfam01063 291112009990 catalytic residue; other site 291112009991 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 291112009992 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 291112009993 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 291112009994 PYR/PP interface; other site 291112009995 dimer interface; other site 291112009996 TPP binding site; other site 291112009997 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 291112009998 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 291112009999 TPP-binding site; other site 291112010000 dimer interface; other site 291112010001 putative ATP-dependent protease; Provisional; Region: PRK09862 291112010002 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112010003 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 291112010004 Protein of unknown function, DUF; Region: DUF413; cl10479 291112010005 transcriptional regulator HdfR; Provisional; Region: PRK03601 291112010006 Transposase DDE domain; Region: Transposase_11; pfam01609 291112010007 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 291112010008 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 291112010009 trimer interface; other site 291112010010 putative metal binding site; other site 291112010011 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 291112010012 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 291112010013 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 291112010014 shikimate binding site; other site 291112010015 NAD(P) binding site; other site 291112010016 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 291112010017 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 291112010018 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 291112010019 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; cl11977 291112010020 DNA protecting protein DprA; Provisional; Region: PRK10736 291112010021 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 291112010022 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...; Region: Pep_deformylase; cd00487 291112010023 active site 291112010024 catalytic residues; other site 291112010025 metal-binding site 291112010026 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 291112010027 Formyl transferase; Region: Formyl_trans_N; cl00395 291112010028 Formyl transferase, C-terminal domain; Region: Formyl_trans_C; pfam02911 291112010029 16S rRNA methyltransferase B; Provisional; Region: PRK10901 291112010030 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 291112010031 putative RNA binding site; other site 291112010032 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 291112010033 S-adenosylmethionine binding site; other site 291112010034 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 291112010035 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112010036 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; cl09110 291112010037 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112010038 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; cl09110 291112010039 Transposase DDE domain; Region: Transposase_11; pfam01609 291112010040 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 291112010041 Transposase; Region: Transposase_9; pfam01548 291112010042 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 291112010043 Domain of unknown function; Region: DUF331; cl01149 291112010044 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 291112010045 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 291112010046 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 291112010047 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 291112010048 alphaNTD homodimer interface; other site 291112010049 alphaNTD - beta interaction site; other site 291112010050 alphaNTD - beta' interaction site; other site 291112010051 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 291112010052 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 291112010053 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 291112010054 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 291112010055 RNA binding surface; other site 291112010056 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 291112010057 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 291112010058 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 291112010059 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 291112010060 eubacterial secY protein; Region: SecY; pfam00344 291112010061 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 291112010062 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...; Region: Ribosomal_L30; cd01658 291112010063 23S rRNA binding site; other site 291112010064 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 291112010065 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 291112010066 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 291112010067 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 291112010068 5S rRNA interface; other site 291112010069 23S rRNA interface; other site 291112010070 L5 interface; other site 291112010071 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 291112010072 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 291112010073 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 291112010074 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 291112010075 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 291112010076 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 291112010077 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 291112010078 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 291112010079 KOW motif; Region: KOW; cl00354 291112010080 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 291112010081 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 291112010082 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 291112010083 23S rRNA interface; other site 291112010084 5S rRNA interface; other site 291112010085 putative antibiotic binding site; other site 291112010086 L25 interface; other site 291112010087 L27 interface; other site 291112010088 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 291112010089 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...; Region: 30S_S3_KH; cd02412 291112010090 G-X-X-G motif; other site 291112010091 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 291112010092 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 291112010093 protein-rRNA interface; other site 291112010094 putative translocon binding site; other site 291112010095 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 291112010096 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 291112010097 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 291112010098 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 291112010099 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 291112010100 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 291112010101 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 291112010102 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 291112010103 Transposase DDE domain; Region: Transposase_11; pfam01609 291112010104 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 291112010105 Ferritin-like domain; Region: Ferritin; pfam00210 291112010106 heme binding site; other site 291112010107 ferroxidase pore; other site 291112010108 ferroxidase diiron center; other site 291112010109 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 291112010110 elongation factor Tu; Reviewed; Region: PRK00049 291112010111 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors...; Region: EF_Tu; cd01884 291112010112 G1 box; other site 291112010113 GEF interaction site; other site 291112010114 GTP/Mg2+ binding site; other site 291112010115 Switch I region; other site 291112010116 G2 box; other site 291112010117 G3 box; other site 291112010118 Switch II region; other site 291112010119 G4 box; other site 291112010120 G5 box; other site 291112010121 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 291112010122 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 291112010123 Antibiotic Binding Site; other site 291112010124 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 291112010125 Integrase core domain; Region: rve; cl01316 291112010126 pantothenate kinase; Provisional; Region: PRK05439 291112010127 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in...; Region: PanK; cd02025 291112010128 ATP-binding site; other site 291112010129 CoA-binding site; other site 291112010130 Mg2+-binding site; other site 291112010131 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112010132 biotin--protein ligase; Provisional; Region: PRK11886 291112010133 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 291112010134 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 291112010135 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 291112010136 FAD binding domain; Region: FAD_binding_4; cl10516 291112010137 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 291112010138 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 291112010139 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 291112010140 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 291112010141 N-terminal plug; other site 291112010142 ligand-binding site; other site 291112010143 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 291112010144 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 291112010145 S-adenosylmethionine binding site; other site 291112010146 Protein of unknown function (DUF1422); Region: DUF1422; cl11649 291112010147 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 291112010148 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 291112010149 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 291112010150 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 291112010151 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 291112010152 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 291112010153 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 291112010154 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 291112010155 dimerization interface; other site 291112010156 argininosuccinate lyase; Provisional; Region: PRK04833 291112010157 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 291112010158 active sites 291112010159 tetramer interface; other site 291112010160 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 291112010161 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 291112010162 ANP binding site; other site 291112010163 Substrate Binding Site II; other site 291112010164 Substrate Binding Site I; other site 291112010165 AAK_NAGK-NC: N-Acetyl-L-glutamate kinase - noncyclic (NAGK-NC) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of microbial arginine biosynthesis using the acetylated, noncyclic route of...; Region: AAK_NAGK-NC; cd04249 291112010166 nucleotide binding site; other site 291112010167 N-acetyl-L-glutamate binding site; other site 291112010168 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 291112010169 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112010170 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 291112010171 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 291112010172 Peptidase dimerization domain; Region: M20_dimer; cl09126 291112010173 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 291112010174 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 291112010175 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...; Region: MTHFR; cd00537 291112010176 FAD binding site; other site 291112010177 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 291112010178 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli AKI-...; Region: AAK_AK-HSDH; cd04257 291112010179 putative catalytic residues; other site 291112010180 putative nucleotide binding site; other site 291112010181 putative aspartate binding site; other site 291112010182 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112010183 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 291112010184 cystathionine gamma-synthase; Provisional; Region: PRK08045 291112010185 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 291112010186 homodimer interface; other site 291112010187 substrate-cofactor binding pocket; other site 291112010188 pyridoxal 5'-phosphate binding site; other site 291112010189 catalytic residue; other site 291112010190 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox' sequence...; Region: Met_repressor_MetJ; cd00490 291112010191 dimerization interface; other site 291112010192 DNA binding site 291112010193 corepressor binding sites; other site 291112010194 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 291112010195 primosome assembly protein PriA; Validated; Region: PRK05580 291112010196 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 291112010197 ATP binding site; other site 291112010198 putative Mg++ binding site; other site 291112010199 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; cl12029 291112010200 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 291112010201 DNA binding site 291112010202 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 291112010203 domain linker motif; other site 291112010204 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 291112010205 dimerization interface; other site 291112010206 ligand binding site; other site 291112010207 Sporulation related domain; Region: SPOR; cl10051 291112010208 cell division protein FtsN; Provisional; Region: PRK12757 291112010209 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 291112010210 active site 291112010211 HslU subunit interaction site; other site 291112010212 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 291112010213 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...; Region: AAA; cd00009 291112010214 Walker A motif; other site 291112010215 ATP binding site; other site 291112010216 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 291112010217 UbiA prenyltransferase family; Region: UbiA; cl00337 291112010218 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 291112010219 Protein of unknown function (DUF904); Region: DUF904; cl11531 291112010220 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N...; Region: MIP; cd00333 291112010221 amphipathic channel; other site 291112010222 Asn-Pro-Ala signature motifs; other site 291112010223 glycerol kinase; Provisional; Region: glpK; PRK00047 291112010224 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 291112010225 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 291112010226 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 291112010227 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112010228 putative substrate translocation pore; other site 291112010229 ferredoxin-NADP reductase; Provisional; Region: PRK10926 291112010230 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 291112010231 FAD binding pocket; other site 291112010232 FAD binding motif; other site 291112010233 phosphate binding motif; other site 291112010234 beta-alpha-beta structure motif; other site 291112010235 NAD binding pocket; other site 291112010236 Protein of unknown function (DUF805); Region: DUF805; cl01224 291112010237 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 291112010238 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 291112010239 substrate binding site; other site 291112010240 dimer interface; other site 291112010241 catalytic triad; other site 291112010242 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 291112010243 6-phosphofructokinase; Provisional; Region: PRK03202 291112010244 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 291112010245 active site 291112010246 ADP/pyrophosphate binding site; other site 291112010247 dimerization interface; other site 291112010248 allosteric effector site; other site 291112010249 fructose-1,6-bisphosphate binding site; other site 291112010250 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 291112010251 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 291112010252 putative acyl-acceptor binding pocket; other site 291112010253 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 291112010254 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 291112010255 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 291112010256 non-specific DNA binding site; other site 291112010257 salt bridge; other site 291112010258 sequence-specific DNA binding site; other site 291112010259 Phage tail tube protein FII; Region: Phage_tube; cl01390 291112010260 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 291112010261 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 291112010262 Uncharacterized conserved small protein [Function unknown]; Region: COG5606 291112010263 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 291112010264 non-specific DNA binding site; other site 291112010265 salt bridge; other site 291112010266 sequence-specific DNA binding site; other site 291112010267 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 291112010268 non-specific DNA binding site; other site 291112010269 salt bridge; other site 291112010270 sequence-specific DNA binding site; other site 291112010271 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 291112010272 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 291112010273 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 291112010274 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 291112010275 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 291112010276 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 291112010277 Baseplate J-like protein; Region: Baseplate_J; cl01294 291112010278 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 291112010279 Phage-related baseplate assembly protein; Region: Phage_base_V; cl11432 291112010280 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 291112010281 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 291112010282 virion protein; Provisional; Region: V; PHA02564 291112010283 Phage holin family (Lysis protein S); Region: Phage_holin_3; cl04938 291112010284 Phage Tail Protein X; Region: Phage_tail_X; cl02088 291112010285 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 291112010286 Phage small terminase subunit; Region: Phage_term_smal; cl05485 291112010287 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 291112010288 capsid-scaffolding protein; Provisional; Region: O; PHA02529 291112010289 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; pfam05929 291112010290 terminase ATPase subunit; Provisional; Region: P; PHA02535 291112010291 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 291112010292 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 291112010293 Phage portal protein; Region: Phage_portal; cl01923 291112010294 phage portal protein, PBSX family; Region: portal_PBSX; TIGR01540 291112010295 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 291112010296 non-specific DNA binding site; other site 291112010297 salt bridge; other site 291112010298 sequence-specific DNA binding site; other site 291112010299 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 291112010300 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; cl12011 291112010301 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; cl12011 291112010302 cofactor binding site; other site 291112010303 DNA binding site 291112010304 substrate interaction site; other site 291112010305 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 291112010306 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 291112010307 Regulatory phage protein cox; Region: Phage_Cox; pfam10743 291112010308 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 291112010309 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 291112010310 non-specific DNA binding site; other site 291112010311 salt bridge; other site 291112010312 sequence-specific DNA binding site; other site 291112010313 integrase; Provisional; Region: int; PHA02601 291112010314 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 291112010315 Int/Topo IB signature motif; other site 291112010316 active site 291112010317 DNA binding site 291112010318 P pilus assembly/Cpx signaling pathway, periplasmic inhibitor/zinc-resistance associated protein [Intracellular trafficking and secretion / Cell motility and secretio / Signal transduction mechanisms / Inorganic ion transport and metabolism]; Region: CpxP; cl01482 291112010319 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 291112010320 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 291112010321 active site 291112010322 intermolecular recognition site; other site 291112010323 dimerization interface; other site 291112010324 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...; Region: trans_reg_C; cd00383 291112010325 DNA binding site 291112010326 two-component sensor protein; Provisional; Region: cpxA; PRK09470 291112010327 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 trans-...; Region: HisKA; cd00082 291112010328 dimer interface; other site 291112010329 phosphorylation site 291112010330 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 291112010331 ATP binding site; other site 291112010332 Mg2+ binding site; other site 291112010333 G-X-G motif; other site 291112010334 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 291112010335 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112010336 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 291112010337 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 291112010338 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 291112010339 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112010340 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 291112010341 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 291112010342 putative trimer interface; other site 291112010343 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 291112010344 putative CoA binding site; other site 291112010345 putative trimer interface; other site 291112010346 putative active site; other site 291112010347 putative substrate binding site; other site 291112010348 putative CoA binding site; other site 291112010349 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 291112010350 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 291112010351 inhibitor-cofactor binding pocket; inhibition site 291112010352 pyridoxal 5'-phosphate binding site; other site 291112010353 catalytic residue; other site 291112010354 D-glucuronyl C5-epimerase C-terminus; Region: C5-epim_C; pfam06662 291112010355 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 291112010356 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 291112010357 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 291112010358 active site 291112010359 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 291112010360 homodimer interface; other site 291112010361 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 291112010362 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 291112010363 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 291112010364 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 291112010365 inhibitor-cofactor binding pocket; inhibition site 291112010366 pyridoxal 5'-phosphate binding site; other site 291112010367 catalytic residue; other site 291112010368 Bacterial sugar transferase; Region: Bac_transf; cl00939 291112010369 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 291112010370 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 291112010371 EamA-like transporter family; Region: EamA; cl01037 291112010372 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 291112010373 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 291112010374 substrate binding site; other site 291112010375 tetramer interface; other site 291112010376 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 291112010377 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 291112010378 inhibitor-cofactor binding pocket; inhibition site 291112010379 pyridoxal 5'-phosphate binding site; other site 291112010380 catalytic residue; other site 291112010381 WbqC-like protein family; Region: WbqC; pfam08889 291112010382 Formyl transferase; Region: Formyl_trans_N; cl00395 291112010383 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 291112010384 integral membrane protein MviN; Region: mviN; TIGR01695 291112010385 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 6...; Region: LbH_MAT_like; cd04647 291112010386 trimer interface; other site 291112010387 active site 291112010388 substrate binding site; other site 291112010389 CoA binding site; other site 291112010390 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 291112010391 active site 291112010392 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 L...; Region: LbH_SAT; cd03354 291112010393 trimer interface; other site 291112010394 active site 291112010395 substrate binding site; other site 291112010396 CoA binding site; other site 291112010397 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 291112010398 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 291112010399 putative ADP-binding pocket; other site 291112010400 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 291112010401 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 291112010402 active site 291112010403 dimer interface; other site 291112010404 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...; Region: Asn_Synthase_B_C; cd01991 291112010405 Ligand Binding Site; other site 291112010406 Molecular Tunnel; other site 291112010407 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 291112010408 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 291112010409 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 291112010410 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 291112010411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112010412 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 291112010413 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 291112010414 putative ADP-binding pocket; other site 291112010415 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 291112010416 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112010417 Bacterial sugar transferase; Region: Bac_transf; cl00939 291112010418 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 291112010419 UDP-glucose 4-epimerase; Region: PLN02240 291112010420 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112010421 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 291112010422 serine acetyltransferase; Provisional; Region: cysE; PRK11132 291112010423 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 291112010424 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 L-...; Region: LbH_SAT; cd03354 291112010425 trimer interface; other site 291112010426 active site 291112010427 substrate binding site; other site 291112010428 CoA binding site; other site 291112010429 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 291112010430 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112010431 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 291112010432 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 291112010433 SecA binding site; other site 291112010434 Preprotein binding site; other site 291112010435 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 291112010436 active site residue 291112010437 hypothetical protein; Provisional; Region: PRK11637 291112010438 Peptidase family M23; Region: Peptidase_M23; pfam01551 291112010439 Divergent polysaccharide deacetylase; Region: Polysacc_deac_2; cl04721 291112010440 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 291112010441 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 291112010442 NAD(P) binding site; other site 291112010443 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 291112010444 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), 8-amino-7-...; Region: KBL_like; cd06454 291112010445 substrate-cofactor binding pocket; other site 291112010446 pyridoxal 5'-phosphate binding site; other site 291112010447 catalytic residue; other site 291112010448 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 291112010449 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 291112010450 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 291112010451 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 291112010452 putative active site; other site 291112010453 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 291112010454 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 291112010455 putative active site; other site 291112010456 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 291112010457 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 291112010458 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 291112010459 putative active site; other site 291112010460 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 291112010461 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 291112010462 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 291112010463 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 291112010464 putative ADP-binding pocket; other site 291112010465 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 291112010466 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 291112010467 Glycosyl transferases group 1; Region: Glycos_transf_1; cl12012 291112010468 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 291112010469 putative metal binding site; other site 291112010470 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 291112010471 Phosphopantetheine adenylyltransferase; Region: PPAT_a; cd02163 291112010472 active site 291112010473 substrate binding site; other site 291112010474 active site motif 291112010475 formamidopyrimidine-DNA glycosylase; Validated; Region: PRK01103 291112010476 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 291112010477 DNA binding site 291112010478 catalytic residue; other site 291112010479 H2TH interface; other site 291112010480 putative catalytic residues; other site 291112010481 turnover-facilitating residue; other site 291112010482 intercalation triad; other site 291112010483 8OG recognition residue; other site 291112010484 putative reading head residues; other site 291112010485 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 291112010486 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 291112010487 O-Antigen ligase; Region: Wzy_C; cl04850 291112010488 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 291112010489 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 291112010490 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 291112010491 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 291112010492 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 291112010493 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 291112010494 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 291112010495 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 291112010496 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 291112010497 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 291112010498 DNA repair protein RadC; Reviewed; Region: radC; PRK00024 291112010499 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 291112010500 MPN+ (JAMM) motif; other site 291112010501 Zinc-binding site; other site 291112010502 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 291112010503 Flavoprotein; Region: Flavoprotein; cl08021 291112010504 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 291112010505 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 291112010506 trimer interface; other site 291112010507 active site 291112010508 nucleoid occlusion protein; Provisional; Region: slmA; PRK09480 291112010509 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 291112010510 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 291112010511 ribonuclease PH; Reviewed; Region: rph; PRK00173 291112010512 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 291112010513 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 291112010514 hypothetical protein; Provisional; Region: PRK11820 291112010515 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 291112010516 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 291112010517 Predicted transcriptional regulator [Transcription]; Region: COG2345 291112010518 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 291112010519 H+ Antiporter protein; Region: 2A0121; TIGR00900 291112010520 putative substrate translocation pore; other site 291112010521 YegV-like sugar kinase. Found only in bacteria, YegV-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YegV_kinase_like; cd01944 291112010522 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 291112010523 substrate binding site; other site 291112010524 ATP binding site; other site 291112010525 Sulfatase; Region: Sulfatase; cl10460 291112010526 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 291112010527 SelB subfamily. SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of...; Region: SelB; cd04171 291112010528 G1 box; other site 291112010529 putative GEF interaction site; other site 291112010530 GTP/Mg2+ binding site; other site 291112010531 Switch I region; other site 291112010532 G2 box; other site 291112010533 G3 box; other site 291112010534 Switch II region; other site 291112010535 G4 box; other site 291112010536 G5 box; other site 291112010537 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires...; Region: selB_II; cd03696 291112010538 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements...; Region: selB_III; cd04094 291112010539 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 291112010540 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 291112010541 selenocysteine synthase; Provisional; Region: PRK04311 291112010542 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 291112010543 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 291112010544 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564; cl11689 291112010545 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 291112010546 O-methyltransferase; Region: Methyltransf_2; pfam00891 291112010547 O-methyltransferase; Region: Methyltransf_2; pfam00891 291112010548 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 291112010549 Fe-S containing; Region: FDH-beta; TIGR01582 291112010550 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 291112010551 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 291112010552 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 291112010553 [4Fe-4S] binding site; other site 291112010554 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 291112010555 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 291112010556 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 291112010557 molybdopterin cofactor binding site; other site 291112010558 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 291112010559 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 291112010560 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 291112010561 Restriction endonuclease NotI; Region: NotI; pfam12183 291112010562 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 291112010563 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 291112010564 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 291112010565 G1 box; other site 291112010566 GTP/Mg2+ binding site; other site 291112010567 Switch I region; other site 291112010568 G2 box; other site 291112010569 Switch II region; other site 291112010570 G3 box; other site 291112010571 G4 box; other site 291112010572 G5 box; other site 291112010573 putative inner membrane protein translocase component YidC; Provisional; Region: PRK01318 291112010574 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 291112010575 Domain of unknown function DUF37; Region: DUF37; cl00506 291112010576 Ribonuclease P; Region: Ribonuclease_P; cl00457 291112010577 Ribosomal protein L34; Region: Ribosomal_L34; cl00370