-- dump date 20111121_015725 -- class Genbank::misc_feature -- table misc_feature_note -- id note 509169000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 509169000002 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 509169000003 Walker A motif; other site 509169000004 ATP binding site [chemical binding]; other site 509169000005 Walker B motif; other site 509169000006 arginine finger; other site 509169000007 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 509169000008 DnaA box-binding interface [nucleotide binding]; other site 509169000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 509169000010 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 509169000011 putative DNA binding surface [nucleotide binding]; other site 509169000012 dimer interface [polypeptide binding]; other site 509169000013 beta-clamp/clamp loader binding surface; other site 509169000014 beta-clamp/translesion DNA polymerase binding surface; other site 509169000015 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 509169000016 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169000017 Walker A/P-loop; other site 509169000018 ATP binding site [chemical binding]; other site 509169000019 Q-loop/lid; other site 509169000020 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169000021 ABC transporter signature motif; other site 509169000022 Walker B; other site 509169000023 D-loop; other site 509169000024 H-loop/switch region; other site 509169000025 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 509169000026 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 509169000027 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 509169000028 anchoring element; other site 509169000029 dimer interface [polypeptide binding]; other site 509169000030 ATP binding site [chemical binding]; other site 509169000031 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 509169000032 active site 509169000033 putative metal-binding site [ion binding]; other site 509169000034 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 509169000035 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 509169000036 Peptidase family M48; Region: Peptidase_M48; cl12018 509169000037 Gram-negative bacterial tonB protein; Region: TonB; cl10048 509169000038 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 509169000039 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 509169000040 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 509169000041 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 509169000042 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 509169000043 active site 509169000044 hydrophilic channel; other site 509169000045 dimerization interface [polypeptide binding]; other site 509169000046 catalytic residues [active] 509169000047 active site lid [active] 509169000048 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 509169000049 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 509169000050 putative active site [active] 509169000051 catalytic site [active] 509169000052 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 509169000053 putative active site [active] 509169000054 catalytic site [active] 509169000055 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 509169000056 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 509169000057 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 509169000058 Rhomboid family; Region: Rhomboid; cl11446 509169000059 Domain of unknown function (DUF1820); Region: DUF1820; cl11545 509169000060 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 509169000061 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169000062 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 509169000063 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 509169000064 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 509169000065 protein binding site [polypeptide binding]; other site 509169000066 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 509169000067 Catalytic dyad [active] 509169000068 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 509169000069 Uncharacterized conserved protein [Function unknown]; Region: COG3595 509169000070 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 509169000071 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 509169000072 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 509169000073 PA/protease or protease-like domain interface [polypeptide binding]; other site 509169000074 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 509169000075 metal binding site [ion binding]; metal-binding site 509169000076 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 509169000077 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 509169000078 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 509169000079 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 509169000080 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 509169000081 putative NAD(P) binding site [chemical binding]; other site 509169000082 putative substrate binding site [chemical binding]; other site 509169000083 catalytic Zn binding site [ion binding]; other site 509169000084 structural Zn binding site [ion binding]; other site 509169000085 dimer interface [polypeptide binding]; other site 509169000086 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 509169000087 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169000088 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169000089 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 509169000090 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 509169000091 active site 509169000092 dimer interface [polypeptide binding]; other site 509169000093 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 509169000094 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 509169000095 active site 509169000096 FMN binding site [chemical binding]; other site 509169000097 substrate binding site [chemical binding]; other site 509169000098 3Fe-4S cluster binding site [ion binding]; other site 509169000099 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 509169000100 domain interface; other site 509169000101 Potato inhibitor I family; Region: potato_inhibit; cl15459 509169000102 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 509169000103 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 509169000104 DNA binding site [nucleotide binding] 509169000105 active site 509169000106 Int/Topo IB signature motif; other site 509169000107 catalytic residues [active] 509169000108 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 509169000109 S-adenosylmethionine binding site [chemical binding]; other site 509169000110 Cupin domain; Region: Cupin_2; cl09118 509169000111 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 509169000112 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 509169000113 LysR family transcriptional regulator; Provisional; Region: PRK14997 509169000114 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169000115 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 509169000116 putative effector binding pocket; other site 509169000117 dimerization interface [polypeptide binding]; other site 509169000118 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 509169000119 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 509169000120 potential catalytic triad [active] 509169000121 conserved cys residue [active] 509169000122 LysR family transcriptional regulator; Provisional; Region: PRK14997 509169000123 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169000124 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 509169000125 putative effector binding pocket; other site 509169000126 dimerization interface [polypeptide binding]; other site 509169000127 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169000128 Peptidase family M48; Region: Peptidase_M48; cl12018 509169000129 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 509169000130 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5255 509169000131 Domain of unknown function (DUF1868); Region: 2H-phosphodiest; pfam08975 509169000132 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 509169000133 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169000134 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 509169000135 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 509169000136 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 509169000137 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 509169000138 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 509169000139 putative active site [active] 509169000140 catalytic site [active] 509169000141 putative metal binding site [ion binding]; other site 509169000142 oligomer interface [polypeptide binding]; other site 509169000143 Predicted exonuclease [DNA replication, recombination, and repair]; Region: COG3359 509169000144 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 509169000145 active site 509169000146 substrate binding site [chemical binding]; other site 509169000147 catalytic site [active] 509169000148 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 509169000149 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 509169000150 ATP binding site [chemical binding]; other site 509169000151 putative Mg++ binding site [ion binding]; other site 509169000152 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 509169000153 nucleotide binding region [chemical binding]; other site 509169000154 ATP-binding site [chemical binding]; other site 509169000155 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 509169000157 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169000158 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 509169000159 Integrase core domain; Region: rve; cl01316 509169000161 Haemolysin-III related; Region: HlyIII; cl03831 509169000162 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 509169000163 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 509169000164 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 509169000165 CsbD-like; Region: CsbD; cl01272 509169000166 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 509169000167 dimerization interface [polypeptide binding]; other site 509169000168 DNA binding residues [nucleotide binding] 509169000169 HDOD domain; Region: HDOD; pfam08668 509169000170 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 509169000171 putative hydrophobic ligand binding site [chemical binding]; other site 509169000172 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 509169000173 active site 509169000174 Zn binding site [ion binding]; other site 509169000175 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 509169000176 NAD(P) binding site [chemical binding]; other site 509169000177 putative active site [active] 509169000178 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 509169000179 nudix motif; other site 509169000180 Domain of unknown function DUF20; Region: UPF0118; cl00465 509169000181 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 509169000182 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 509169000183 Protein required for attachment to host cells; Region: Host_attach; cl02398 509169000184 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 509169000185 catalytic residues [active] 509169000186 proline/glycine betaine transporter; Provisional; Region: PRK10642 509169000187 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169000188 putative substrate translocation pore; other site 509169000189 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 509169000190 putative hydrophobic ligand binding site [chemical binding]; other site 509169000191 EcsC protein family; Region: EcsC; pfam12787 509169000192 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 509169000193 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 509169000194 Aerotolerance regulator N-terminal; Region: BatA; cl06567 509169000195 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 509169000196 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 509169000197 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 509169000198 Walker A motif; other site 509169000199 ATP binding site [chemical binding]; other site 509169000200 Walker B motif; other site 509169000201 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 509169000202 arginine finger; other site 509169000203 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 509169000204 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 509169000205 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 509169000206 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 509169000207 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 509169000208 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 509169000209 fructose-1,6-bisphosphatase family protein; Region: PLN02628 509169000210 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 509169000211 AMP binding site [chemical binding]; other site 509169000212 metal binding site [ion binding]; metal-binding site 509169000213 active site 509169000214 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 509169000215 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 509169000216 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169000217 homodimer interface [polypeptide binding]; other site 509169000218 catalytic residue [active] 509169000219 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 509169000220 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 509169000221 N-terminal plug; other site 509169000222 ligand-binding site [chemical binding]; other site 509169000223 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 509169000224 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 509169000225 NAD(P) binding site [chemical binding]; other site 509169000226 catalytic residues [active] 509169000227 Protein of unknown function (DUF779); Region: DUF779; cl01432 509169000228 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 509169000229 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 509169000230 putative DNA binding site [nucleotide binding]; other site 509169000231 putative homodimer interface [polypeptide binding]; other site 509169000232 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 509169000233 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 509169000234 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 509169000235 active site 509169000236 DNA binding site [nucleotide binding] 509169000237 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 509169000238 DNA binding site [nucleotide binding] 509169000239 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 509169000240 nucleotide binding site [chemical binding]; other site 509169000241 Transposase domain (DUF772); Region: DUF772; cl12084 509169000242 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 509169000243 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 509169000244 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 509169000245 active site 509169000246 substrate binding site [chemical binding]; other site 509169000247 FMN binding site [chemical binding]; other site 509169000248 putative catalytic residues [active] 509169000249 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 509169000250 DNA binding site [nucleotide binding] 509169000251 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 509169000252 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 509169000253 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169000254 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 509169000255 SGNH_hydrolase subfamily, similar to the putative arylesterase/acylhydrolase from the rumen anaerobe Prevotella bryantii XynE. The P. bryantii XynE gene is located in a xylanase gene cluster. SGNH hydrolases are a diverse family of lipases and esterases; Region: XynE_like; cd01830 509169000256 active site 509169000257 catalytic triad [active] 509169000258 oxyanion hole [active] 509169000259 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 509169000260 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 509169000261 substrate binding site [chemical binding]; other site 509169000262 ATP binding site [chemical binding]; other site 509169000263 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 509169000264 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169000265 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 509169000266 ligand-binding site [chemical binding]; other site 509169000267 outer membrane receptor FepA; Provisional; Region: PRK13528 509169000268 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169000269 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 509169000270 Pectinesterase; Region: Pectinesterase; cl01911 509169000271 Pectic acid lyase; Region: Pec_lyase; pfam09492 509169000272 Pectic acid lyase; Region: Pec_lyase; pfam09492 509169000273 DGQHR domain; Region: DGQHR; cl14002 509169000274 HSP20-like domain of unknown function (DUF1813); Region: DUF1813; cl07446 509169000275 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169000276 putative transposase OrfB; Reviewed; Region: PHA02517 509169000277 Integrase core domain; Region: rve; cl01316 509169000278 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 509169000279 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 509169000280 trehalose synthase; Region: treS_nterm; TIGR02456 509169000281 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 509169000282 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 509169000283 glycogen branching enzyme; Provisional; Region: PRK05402 509169000284 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 509169000285 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 509169000286 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 509169000287 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 509169000288 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 509169000289 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 509169000290 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 509169000291 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 509169000292 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 509169000293 active site 509169000294 metal binding site [ion binding]; metal-binding site 509169000295 homotetramer interface [polypeptide binding]; other site 509169000296 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 509169000297 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 509169000298 active site 509169000299 catalytic tetrad [active] 509169000300 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 509169000301 active site 509169000302 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 509169000303 catalytic triad [active] 509169000304 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 509169000305 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 509169000306 substrate binding pocket [chemical binding]; other site 509169000307 catalytic triad [active] 509169000308 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 509169000309 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 509169000310 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 509169000311 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 509169000312 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 509169000313 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 509169000314 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 509169000315 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 509169000316 active site 509169000317 Transcriptional regulators [Transcription]; Region: PurR; COG1609 509169000318 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 509169000319 DNA binding site [nucleotide binding] 509169000320 domain linker motif; other site 509169000321 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 509169000322 putative dimerization interface [polypeptide binding]; other site 509169000323 putative ligand binding site [chemical binding]; other site 509169000324 KduI/IolB family; Region: KduI; cl01508 509169000325 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 509169000326 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 509169000327 NADP binding site [chemical binding]; other site 509169000328 homodimer interface [polypeptide binding]; other site 509169000329 active site 509169000330 hypothetical protein; Provisional; Region: PRK09273 509169000331 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 509169000332 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 509169000333 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 509169000334 active site 509169000335 catalytic triad [active] 509169000336 Cupin domain; Region: Cupin_2; cl09118 509169000337 Protein of unknown function (DUF3532); Region: DUF3532; pfam12050 509169000338 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 509169000339 cofactor binding site; other site 509169000340 metal binding site [ion binding]; metal-binding site 509169000341 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169000342 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 509169000343 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 509169000344 N-terminal plug; other site 509169000345 ligand-binding site [chemical binding]; other site 509169000347 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 509169000348 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 509169000349 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 509169000350 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 509169000351 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 509169000352 active site 509169000353 nucleophile elbow; other site 509169000354 Protein of unknown function DUF124; Region: DUF124; cl00884 509169000355 ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]; Region: ModF; COG1119 509169000356 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169000357 Walker A/P-loop; other site 509169000358 ATP binding site [chemical binding]; other site 509169000359 Q-loop/lid; other site 509169000360 ABC transporter signature motif; other site 509169000361 Walker B; other site 509169000362 D-loop; other site 509169000363 H-loop/switch region; other site 509169000364 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 509169000365 Fatty acid desaturase; Region: FA_desaturase; pfam00487 509169000366 Di-iron ligands [ion binding]; other site 509169000367 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 509169000368 transaldolase/EF-hand domain-containing protein; Provisional; Region: PRK12309 509169000369 Ca2+ binding site [ion binding]; other site 509169000370 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169000371 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 509169000372 Walker A/P-loop; other site 509169000373 ATP binding site [chemical binding]; other site 509169000374 Q-loop/lid; other site 509169000375 ABC transporter signature motif; other site 509169000376 Walker B; other site 509169000377 D-loop; other site 509169000378 H-loop/switch region; other site 509169000379 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 509169000380 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 509169000381 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 509169000382 dimer interface [polypeptide binding]; other site 509169000383 conserved gate region; other site 509169000384 ABC-ATPase subunit interface; other site 509169000385 Aminotransferase class-V; Region: Aminotran_5; pfam00266 509169000386 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 509169000387 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 509169000388 catalytic residue [active] 509169000389 TIGR03440 family protein; Region: unchr_TIGR03440 509169000390 DinB superfamily; Region: DinB_2; cl00986 509169000391 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 509169000392 probable methyltransferase; Region: TIGR03438 509169000393 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 509169000394 Protein of unknown function (DUF3253); Region: DUF3253; pfam11625 509169000395 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 509169000396 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 509169000397 dimer interface [polypeptide binding]; other site 509169000398 PYR/PP interface [polypeptide binding]; other site 509169000399 TPP binding site [chemical binding]; other site 509169000400 substrate binding site [chemical binding]; other site 509169000401 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 509169000402 TPP-binding site; other site 509169000403 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 509169000404 Membrane transport protein; Region: Mem_trans; cl09117 509169000405 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 509169000406 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 509169000407 P-loop; other site 509169000408 Magnesium ion binding site [ion binding]; other site 509169000409 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 509169000410 catalytic core [active] 509169000411 YceI-like domain; Region: YceI; cl01001 509169000412 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 509169000413 putative active site [active] 509169000414 catalytic site [active] 509169000415 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 509169000416 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 509169000417 putative active site [active] 509169000418 catalytic site [active] 509169000419 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 509169000420 CoenzymeA binding site [chemical binding]; other site 509169000421 subunit interaction site [polypeptide binding]; other site 509169000422 PHB binding site; other site 509169000423 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 509169000424 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 509169000425 putative acyl-acceptor binding pocket; other site 509169000426 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 509169000427 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 509169000428 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 509169000429 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 509169000430 binding surface 509169000431 TPR motif; other site 509169000432 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 509169000433 binding surface 509169000434 TPR motif; other site 509169000435 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 509169000436 substrate binding site [chemical binding]; other site 509169000437 META domain; Region: META; cl01245 509169000438 Bacitracin resistance protein BacA; Region: BacA; cl00858 509169000439 glutamine synthetase; Provisional; Region: glnA; PRK09469 509169000440 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 509169000441 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 509169000442 Nitrogen regulatory protein P-II; Region: P-II; cl00412 509169000443 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 509169000444 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 509169000445 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 509169000446 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 509169000447 ATP binding site [chemical binding]; other site 509169000448 Mg2+ binding site [ion binding]; other site 509169000449 G-X-G motif; other site 509169000450 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 509169000451 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 509169000452 active site 509169000453 phosphorylation site [posttranslational modification] 509169000454 intermolecular recognition site; other site 509169000455 dimerization interface [polypeptide binding]; other site 509169000456 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 509169000457 Walker A motif; other site 509169000458 ATP binding site [chemical binding]; other site 509169000459 Walker B motif; other site 509169000460 arginine finger; other site 509169000461 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 509169000462 Squalene epoxidase; Region: SE; pfam08491 509169000463 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 509169000464 P-class dimer interface [polypeptide binding]; other site 509169000465 active site 509169000466 Cu2+ binding site [ion binding]; other site 509169000467 E-class dimer interface [polypeptide binding]; other site 509169000468 Zn2+ binding site [ion binding]; other site 509169000469 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 509169000470 E-class dimer interface [polypeptide binding]; other site 509169000471 P-class dimer interface [polypeptide binding]; other site 509169000472 active site 509169000473 Cu2+ binding site [ion binding]; other site 509169000474 Zn2+ binding site [ion binding]; other site 509169000475 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_13; cd08354 509169000476 putative metal binding site [ion binding]; other site 509169000477 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 509169000478 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 509169000479 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 509169000480 dimer interface [polypeptide binding]; other site 509169000481 active site 509169000482 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 509169000483 HemY protein N-terminus; Region: HemY_N; pfam07219 509169000484 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 509169000485 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 509169000486 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 509169000487 active site 509169000488 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 509169000489 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 509169000490 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 509169000491 active site residue [active] 509169000492 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; cl00251 509169000493 SecA binding site; other site 509169000494 Preprotein binding site; other site 509169000495 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 509169000496 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169000497 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 509169000498 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169000499 pyruvate dehydrogenase; Provisional; Region: PRK09124 509169000500 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 509169000501 PYR/PP interface [polypeptide binding]; other site 509169000502 tetramer interface [polypeptide binding]; other site 509169000503 dimer interface [polypeptide binding]; other site 509169000504 TPP binding site [chemical binding]; other site 509169000505 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 509169000506 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 509169000507 TPP-binding site [chemical binding]; other site 509169000508 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 509169000509 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 509169000510 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 509169000511 dimer interface [polypeptide binding]; other site 509169000512 active site 509169000513 CoA binding pocket [chemical binding]; other site 509169000514 Fic family protein [Function unknown]; Region: COG3177 509169000515 Fic/DOC family; Region: Fic; cl00960 509169000516 haloalkane dehalogenase; Provisional; Region: PRK00870 509169000517 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 509169000518 Flagellin N-methylase; Region: FliB; cl00497 509169000519 peptide synthase; Provisional; Region: PRK09274 509169000520 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 509169000521 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 509169000522 DNA binding site [nucleotide binding] 509169000523 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 509169000524 TPR motif; other site 509169000525 binding surface 509169000526 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 509169000527 TPR motif; other site 509169000528 binding surface 509169000529 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 509169000530 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 509169000531 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169000532 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 509169000533 NAD(P) binding site [chemical binding]; other site 509169000534 active site 509169000535 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 509169000536 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 509169000537 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 509169000538 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 509169000539 SCP-2 sterol transfer family; Region: SCP2; cl01225 509169000540 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 509169000541 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 509169000542 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 509169000543 active site 509169000544 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 509169000545 RF-1 domain; Region: RF-1; cl02875 509169000546 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 509169000547 putative acyl-acceptor binding pocket; other site 509169000548 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 509169000549 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 509169000550 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 509169000551 active site 509169000552 Zn binding site [ion binding]; other site 509169000553 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 509169000554 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169000555 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 509169000556 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 509169000557 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 509169000558 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169000559 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 509169000560 dimerization interface [polypeptide binding]; other site 509169000561 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 509169000562 malate synthase A; Region: malate_syn_A; TIGR01344 509169000563 active site 509169000564 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 509169000565 tetramer interface [polypeptide binding]; other site 509169000566 active site 509169000567 Mg2+/Mn2+ binding site [ion binding]; other site 509169000568 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 509169000569 ligand binding site [chemical binding]; other site 509169000570 flexible hinge region; other site 509169000571 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169000572 metal binding site [ion binding]; metal-binding site 509169000573 active site 509169000574 I-site; other site 509169000575 cyclase homology domain; Region: CHD; cd07302 509169000576 nucleotidyl binding site; other site 509169000577 dimer interface [polypeptide binding]; other site 509169000578 metal binding site [ion binding]; metal-binding site 509169000579 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 509169000580 binding surface 509169000581 TPR motif; other site 509169000582 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 509169000583 TPR motif; other site 509169000584 binding surface 509169000585 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 509169000586 putative FMN binding site [chemical binding]; other site 509169000587 NADPH bind site [chemical binding]; other site 509169000588 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 509169000589 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 509169000590 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 509169000591 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 509169000592 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 509169000593 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 509169000594 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 509169000595 carboxyltransferase (CT) interaction site; other site 509169000596 biotinylation site [posttranslational modification]; other site 509169000597 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 509169000598 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 509169000599 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 509169000600 isovaleryl-CoA dehydrogenase; Region: PLN02519 509169000601 substrate binding site [chemical binding]; other site 509169000602 FAD binding site [chemical binding]; other site 509169000603 catalytic base [active] 509169000604 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 509169000605 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169000606 RES domain; Region: RES; cl02411 509169000607 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 509169000608 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 509169000609 Nickel uptake substrate-specific transmembrane region; Region: NikM; pfam10670 509169000610 Cytochrome c; Region: Cytochrom_C; cl11414 509169000611 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 509169000612 generic binding surface I; other site 509169000613 generic binding surface II; other site 509169000614 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 509169000615 putative active site [active] 509169000616 putative catalytic site [active] 509169000617 putative Mg binding site IVb [ion binding]; other site 509169000618 putative DNA binding site [nucleotide binding]; other site 509169000619 putative phosphate binding site [ion binding]; other site 509169000620 putative Mg binding site IVa [ion binding]; other site 509169000621 MerC mercury resistance protein; Region: MerC; cl03934 509169000622 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 509169000623 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169000624 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 509169000625 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 509169000626 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 509169000627 Predicted ATPase [General function prediction only]; Region: COG1485 509169000628 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169000629 OsmC-like protein; Region: OsmC; cl00767 509169000630 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 509169000631 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 509169000632 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169000633 putative transposase OrfB; Reviewed; Region: PHA02517 509169000634 Integrase core domain; Region: rve; cl01316 509169000635 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 509169000636 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 509169000637 active site 509169000638 catalytic tetrad [active] 509169000639 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 509169000640 Prostaglandin dehydrogenases; Region: PGDH; cd05288 509169000641 NAD(P) binding site [chemical binding]; other site 509169000642 substrate binding site [chemical binding]; other site 509169000643 dimer interface [polypeptide binding]; other site 509169000644 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 509169000645 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 509169000646 active site 509169000647 catalytic tetrad [active] 509169000648 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 509169000649 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 509169000650 pseudouridine synthase; Region: TIGR00093 509169000651 active site 509169000652 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 509169000653 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 509169000654 ATP binding site [chemical binding]; other site 509169000655 putative Mg++ binding site [ion binding]; other site 509169000656 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 509169000657 nucleotide binding region [chemical binding]; other site 509169000658 ATP-binding site [chemical binding]; other site 509169000659 Helicase associated domain (HA2); Region: HA2; cl04503 509169000660 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 509169000661 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 509169000662 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 509169000663 dimerization interface [polypeptide binding]; other site 509169000664 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 509169000665 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 transmembrane...; Region: TarH; cl00144 509169000666 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 509169000667 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 509169000668 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 509169000669 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 509169000670 active site 509169000671 homotetramer interface [polypeptide binding]; other site 509169000672 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 509169000673 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169000674 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169000675 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 509169000676 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 509169000677 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 509169000678 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 509169000679 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 509169000680 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 509169000681 catalytic residue [active] 509169000682 allantoate amidohydrolase; Reviewed; Region: PRK09290 509169000683 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 509169000684 active site 509169000685 metal binding site [ion binding]; metal-binding site 509169000686 dimer interface [polypeptide binding]; other site 509169000687 Transcriptional regulator [Transcription]; Region: LysR; COG0583 509169000688 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169000689 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 509169000690 putative effector binding pocket; other site 509169000691 putative dimerization interface [polypeptide binding]; other site 509169000692 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169000693 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 509169000694 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169000695 putative substrate translocation pore; other site 509169000696 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 509169000697 putative catalytic site [active] 509169000698 putative metal binding site [ion binding]; other site 509169000699 putative phosphate binding site [ion binding]; other site 509169000700 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 509169000701 putative active site [active] 509169000702 catalytic site [active] 509169000703 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 509169000704 putative active site [active] 509169000705 catalytic site [active] 509169000706 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 509169000707 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 509169000708 amidase; Provisional; Region: PRK09201 509169000709 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; cl11426 509169000710 nuc_hydro_CjNH. Nucleoside hydrolases similar to Campylobacter jejuni nucleoside hydrolase. This group contains eukaryotic and bacterial proteins similar to C. jejuni nucleoside hydrolase. Nucleoside hydrolases cleave the N-glycosidic bond in...; Region: nuc_hydro_CjNH; cd02654 509169000711 active site 509169000712 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 509169000713 active site 509169000714 Permease family; Region: Xan_ur_permease; cl00967 509169000715 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 509169000716 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 509169000717 FMN-binding pocket [chemical binding]; other site 509169000718 flavin binding motif; other site 509169000719 phosphate binding motif [ion binding]; other site 509169000720 beta-alpha-beta structure motif; other site 509169000721 NAD binding pocket [chemical binding]; other site 509169000722 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 509169000723 catalytic loop [active] 509169000724 iron binding site [ion binding]; other site 509169000725 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 509169000726 iron-sulfur cluster [ion binding]; other site 509169000727 [2Fe-2S] cluster binding site [ion binding]; other site 509169000728 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 509169000729 hydrophobic ligand binding site; other site 509169000730 Transcriptional regulator [Transcription]; Region: LysR; COG0583 509169000731 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169000732 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 509169000733 dimerization interface [polypeptide binding]; other site 509169000734 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 509169000735 active site 509169000736 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 509169000737 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169000738 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 509169000739 putative dimerization interface [polypeptide binding]; other site 509169000740 putative substrate binding pocket [chemical binding]; other site 509169000741 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169000742 putative substrate translocation pore; other site 509169000743 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 509169000744 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169000745 NAD-dependent deacetylase; Provisional; Region: PRK05333 509169000746 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein...; Region: SIRT4; cd01409 509169000747 NAD+ binding site [chemical binding]; other site 509169000748 substrate binding site [chemical binding]; other site 509169000749 Zn binding site [ion binding]; other site 509169000750 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 509169000751 active site 509169000752 FMN binding site [chemical binding]; other site 509169000753 substrate binding site [chemical binding]; other site 509169000754 homotetramer interface [polypeptide binding]; other site 509169000755 catalytic residue [active] 509169000756 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 509169000757 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169000758 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 509169000759 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 509169000760 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 509169000761 putative substrate binding site [chemical binding]; other site 509169000762 putative active site [active] 509169000763 putative cosubstrate binding site; other site 509169000764 catalytic site [active] 509169000765 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 509169000766 FAD binding site [chemical binding]; other site 509169000767 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 509169000768 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169000769 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 509169000770 putative dimerization interface [polypeptide binding]; other site 509169000771 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 509169000772 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 509169000773 methionine synthase; Provisional; Region: PRK01207 509169000774 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 509169000775 substrate binding site [chemical binding]; other site 509169000776 THF binding site; other site 509169000777 zinc-binding site [ion binding]; other site 509169000778 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 509169000779 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 509169000780 NADP binding site [chemical binding]; other site 509169000781 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169000782 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 509169000783 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 transmembrane...; Region: TarH; cl00144 509169000784 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 509169000785 hypothetical protein; Provisional; Region: PRK10318 509169000786 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 509169000787 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 509169000788 active site 509169000789 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 509169000790 HSP20-like domain of unknown function (DUF1813); Region: DUF1813; cl07446 509169000791 integron integrase; Region: integrase_gron; TIGR02249 509169000792 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 509169000793 Int/Topo IB signature motif; other site 509169000794 Dehydratase family; Region: ILVD_EDD; cl00340 509169000795 Flagellin N-methylase; Region: FliB; cl00497 509169000796 Protein of unknown function (DUF2167); Region: DUF2167; cl01938 509169000797 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 509169000798 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 509169000799 trimer interface [polypeptide binding]; other site 509169000800 putative metal binding site [ion binding]; other site 509169000801 benzoate transport; Region: 2A0115; TIGR00895 509169000802 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169000803 putative substrate translocation pore; other site 509169000804 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 509169000805 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 509169000806 Zn2+ binding site [ion binding]; other site 509169000807 Mg2+ binding site [ion binding]; other site 509169000808 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 509169000809 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169000810 NAD(P) binding site [chemical binding]; other site 509169000811 3-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK12428 509169000812 active site 509169000813 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 509169000814 NAD-dependent benzaldehyde dehydrogenase II-like; Region: ALDH_BenzADH; cd07152 509169000815 NAD(P) binding site [chemical binding]; other site 509169000816 catalytic residues [active] 509169000817 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 509169000818 Cupin domain; Region: Cupin_2; cl09118 509169000819 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 509169000820 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 509169000821 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169000822 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 509169000823 glycerol kinase; Provisional; Region: glpK; PRK00047 509169000824 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 509169000825 N- and C-terminal domain interface [polypeptide binding]; other site 509169000826 active site 509169000827 MgATP binding site [chemical binding]; other site 509169000828 catalytic site [active] 509169000829 metal binding site [ion binding]; metal-binding site 509169000830 glycerol binding site [chemical binding]; other site 509169000831 homotetramer interface [polypeptide binding]; other site 509169000832 homodimer interface [polypeptide binding]; other site 509169000833 FBP binding site [chemical binding]; other site 509169000834 protein IIAGlc interface [polypeptide binding]; other site 509169000835 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 509169000836 amphipathic channel; other site 509169000837 Asn-Pro-Ala signature motifs; other site 509169000838 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 509169000839 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 509169000840 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169000841 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 509169000842 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 509169000843 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 509169000844 FMN-binding pocket [chemical binding]; other site 509169000845 flavin binding motif; other site 509169000846 phosphate binding motif [ion binding]; other site 509169000847 beta-alpha-beta structure motif; other site 509169000848 NAD binding pocket [chemical binding]; other site 509169000849 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 509169000850 catalytic loop [active] 509169000851 iron binding site [ion binding]; other site 509169000852 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 509169000853 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 509169000854 iron-sulfur cluster [ion binding]; other site 509169000855 [2Fe-2S] cluster binding site [ion binding]; other site 509169000856 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 509169000857 alpha subunit interface [polypeptide binding]; other site 509169000858 active site 509169000859 substrate binding site [chemical binding]; other site 509169000860 Fe binding site [ion binding]; other site 509169000861 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 509169000862 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 509169000863 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 509169000864 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 509169000865 dimer interface [polypeptide binding]; other site 509169000866 active site 509169000867 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 509169000868 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl01383 509169000869 active site 509169000870 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 509169000871 heterodimer interface [polypeptide binding]; other site 509169000872 active site 509169000873 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 509169000874 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 509169000875 tetramer interface [polypeptide binding]; other site 509169000876 active site 509169000877 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 509169000878 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 509169000879 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 509169000880 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 509169000881 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 509169000882 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169000883 Bacterial transcriptional regulator; Region: IclR; pfam01614 509169000884 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 509169000885 ATP binding site [chemical binding]; other site 509169000886 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 509169000887 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 509169000888 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 509169000889 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 509169000890 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 509169000891 serine racemase; Region: PLN02970 509169000892 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 509169000893 tetramer interface [polypeptide binding]; other site 509169000894 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169000895 catalytic residue [active] 509169000896 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 509169000897 putative active site [active] 509169000898 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 509169000899 Cupin domain; Region: Cupin_2; cl09118 509169000900 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 509169000901 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 509169000902 S-adenosylmethionine binding site [chemical binding]; other site 509169000903 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 509169000904 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 509169000905 putative NAD(P) binding site [chemical binding]; other site 509169000906 putative active site [active] 509169000907 putative pimeloyl-BioC--CoA transferase BioH; Region: bioH; TIGR01738 509169000908 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 509169000909 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 509169000910 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 509169000911 catalytic residue [active] 509169000912 biotin synthase; Provisional; Region: PRK15108 509169000913 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 509169000914 FeS/SAM binding site; other site 509169000915 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 509169000916 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 509169000917 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 509169000918 UbiA prenyltransferase family; Region: UbiA; cl00337 509169000919 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 509169000920 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 509169000921 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 509169000922 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 509169000923 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 509169000924 N-terminal plug; other site 509169000925 ligand-binding site [chemical binding]; other site 509169000926 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 509169000927 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 509169000928 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 509169000929 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 509169000930 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 509169000931 N-terminal plug; other site 509169000932 ligand-binding site [chemical binding]; other site 509169000933 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 509169000934 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 509169000935 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 509169000936 catalytic residue [active] 509169000937 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169000938 putative transposase OrfB; Reviewed; Region: PHA02517 509169000939 Integrase core domain; Region: rve; cl01316 509169000940 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 509169000941 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 509169000942 Mechanosensitive ion channel; Region: MS_channel; pfam00924 509169000943 phosphoglycerol transferase I; Provisional; Region: PRK12363 509169000944 Sulfatase; Region: Sulfatase; cl10460 509169000945 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 509169000946 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 509169000947 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 509169000948 Protein of unknown function (DUF808); Region: DUF808; cl01002 509169000949 Uncharacterised BCR, COG1649; Region: DUF187; cl15398 509169000950 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169000951 metal binding site [ion binding]; metal-binding site 509169000952 active site 509169000953 I-site; other site 509169000954 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 509169000955 glycogen synthase; Provisional; Region: glgA; PRK00654 509169000956 ADP-binding pocket [chemical binding]; other site 509169000957 homodimer interface [polypeptide binding]; other site 509169000958 glycogen branching enzyme; Provisional; Region: PRK12568 509169000959 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 509169000960 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 509169000961 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 509169000962 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 509169000963 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 509169000964 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 509169000965 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 509169000966 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 509169000967 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 509169000968 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 509169000969 malto-oligosyltrehalose synthase; Region: trehalose_TreY; TIGR02401 509169000970 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 509169000971 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 509169000972 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 509169000973 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 509169000974 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 509169000975 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 509169000976 NAD binding site [chemical binding]; other site 509169000977 active site 509169000978 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 509169000979 classical (c) SDRs; Region: SDR_c; cd05233 509169000980 NAD(P) binding site [chemical binding]; other site 509169000981 active site 509169000982 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 509169000983 VirK protein; Region: VirK; pfam06903 509169000984 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 509169000985 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 509169000986 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169000987 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 509169000988 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 509169000989 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 509169000990 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 509169000991 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 509169000992 NADP binding site [chemical binding]; other site 509169000993 active site 509169000994 steroid binding site; other site 509169000995 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169000996 DEAD-like helicases superfamily; Region: DEXDc; smart00487 509169000997 ATP binding site [chemical binding]; other site 509169000998 putative Mg++ binding site [ion binding]; other site 509169000999 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 509169001000 nucleotide binding region [chemical binding]; other site 509169001001 ATP-binding site [chemical binding]; other site 509169001005 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide acyltransferase (E2) component, and related enzymes [Energy production and conversion]; Region: AceF; COG0508 509169001006 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 509169001007 E3 interaction surface; other site 509169001008 lipoyl attachment site [posttranslational modification]; other site 509169001009 e3 binding domain; Region: E3_binding; pfam02817 509169001010 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 509169001011 Src homology 3 domains; SH3 domains bind to proline-rich ligands with moderate affinity and selectivity, preferentially to PxxP motifs; they play a role in the regulation of enzymes by intramolecular interactions, changing the subcellular localization of...; Region: SH3; cl15350 509169001012 Src homology 3 domains; SH3 domains bind to proline-rich ligands with moderate affinity and selectivity, preferentially to PxxP motifs; they play a role in the regulation of enzymes by intramolecular interactions, changing the subcellular localization of...; Region: SH3; cl15350 509169001013 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 509169001014 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 509169001015 alpha subunit interface [polypeptide binding]; other site 509169001016 TPP binding site [chemical binding]; other site 509169001017 heterodimer interface [polypeptide binding]; other site 509169001018 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 509169001019 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 509169001020 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 509169001021 TPP-binding site [chemical binding]; other site 509169001022 tetramer interface [polypeptide binding]; other site 509169001023 heterodimer interface [polypeptide binding]; other site 509169001024 phosphorylation loop region [posttranslational modification] 509169001025 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 509169001026 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 509169001027 generic binding surface I; other site 509169001028 generic binding surface II; other site 509169001029 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 509169001030 putative catalytic site [active] 509169001031 putative metal binding site [ion binding]; other site 509169001032 putative phosphate binding site [ion binding]; other site 509169001033 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 509169001034 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 509169001035 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 509169001036 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 509169001037 Transcriptional regulators [Transcription]; Region: MarR; COG1846 509169001038 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169001039 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 509169001040 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 509169001041 dimer interface [polypeptide binding]; other site 509169001042 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 509169001043 active site 509169001044 Fe binding site [ion binding]; other site 509169001045 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 509169001046 putative active site [active] 509169001047 Cupin domain; Region: Cupin_2; cl09118 509169001048 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 509169001049 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 509169001050 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 509169001051 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 509169001052 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 509169001053 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 509169001054 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 509169001055 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 509169001056 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 509169001057 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 509169001058 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 509169001059 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169001060 NAD(P) binding site [chemical binding]; other site 509169001061 active site 509169001062 Protein of unknown function (DUF962); Region: DUF962; cl01879 509169001063 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 509169001064 N-acetyl-D-glucosamine binding site [chemical binding]; other site 509169001065 catalytic residue [active] 509169001066 Peptidase family M23; Region: Peptidase_M23; pfam01551 509169001067 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 509169001068 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 509169001069 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 509169001070 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 509169001071 ATP binding site [chemical binding]; other site 509169001072 active site 509169001073 substrate binding site [chemical binding]; other site 509169001074 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 509169001075 HSP70 interaction site [polypeptide binding]; other site 509169001076 Surface antigen; Region: Surface_Ag_2; cl01155 509169001077 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 509169001078 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 509169001079 substrate binding site [chemical binding]; other site 509169001080 hexamer interface [polypeptide binding]; other site 509169001081 metal binding site [ion binding]; metal-binding site 509169001082 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 509169001083 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 509169001084 Coenzyme A binding pocket [chemical binding]; other site 509169001085 lipid kinase; Reviewed; Region: PRK13054 509169001086 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 509169001087 anthranilate synthase component I; Provisional; Region: PRK13565 509169001088 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 509169001089 chorismate binding enzyme; Region: Chorismate_bind; cl10555 509169001090 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 509169001091 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 509169001092 catalytic residue [active] 509169001093 Protein of unknown function (DUF541); Region: SIMPL; cl01077 509169001094 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 509169001095 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 509169001096 glutamine binding [chemical binding]; other site 509169001097 catalytic triad [active] 509169001098 Flavin Reductases; Region: FlaRed; cl00801 509169001099 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 509169001100 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 509169001101 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 509169001102 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 509169001103 active site 509169001104 ribulose/triose binding site [chemical binding]; other site 509169001105 phosphate binding site [ion binding]; other site 509169001106 substrate (anthranilate) binding pocket [chemical binding]; other site 509169001107 product (indole) binding pocket [chemical binding]; other site 509169001108 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 509169001109 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 509169001110 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 509169001111 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 509169001112 ligand binding site [chemical binding]; other site 509169001113 flexible hinge region; other site 509169001114 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169001115 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 509169001116 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 509169001117 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 509169001118 diiron binding motif [ion binding]; other site 509169001119 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 509169001120 23S rRNA interface [nucleotide binding]; other site 509169001121 L3 interface [polypeptide binding]; other site 509169001122 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 509169001123 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 509169001124 putative active site [active] 509169001125 Ap4A binding site [chemical binding]; other site 509169001126 nudix motif; other site 509169001127 putative metal binding site [ion binding]; other site 509169001128 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 509169001129 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 509169001130 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 509169001131 heme binding site [chemical binding]; other site 509169001132 ferroxidase pore; other site 509169001133 ferroxidase diiron center [ion binding]; other site 509169001134 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169001135 dimer interface [polypeptide binding]; other site 509169001136 phosphorylation site [posttranslational modification] 509169001137 two-component VirA-like sensor kinase; Provisional; Region: PRK13837 509169001138 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 509169001139 ATP binding site [chemical binding]; other site 509169001140 Mg2+ binding site [ion binding]; other site 509169001141 G-X-G motif; other site 509169001142 Response regulator receiver domain; Region: Response_reg; pfam00072 509169001143 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 509169001144 active site 509169001145 phosphorylation site [posttranslational modification] 509169001146 intermolecular recognition site; other site 509169001147 dimerization interface [polypeptide binding]; other site 509169001148 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 509169001149 Response regulator receiver domain; Region: Response_reg; pfam00072 509169001150 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 509169001151 active site 509169001152 phosphorylation site [posttranslational modification] 509169001153 intermolecular recognition site; other site 509169001154 dimerization interface [polypeptide binding]; other site 509169001155 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169001156 metal binding site [ion binding]; metal-binding site 509169001157 active site 509169001158 I-site; other site 509169001159 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 509169001160 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 509169001161 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 509169001162 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 509169001163 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 509169001164 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 509169001165 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 509169001166 putative NADH binding site [chemical binding]; other site 509169001167 putative active site [active] 509169001168 nudix motif; other site 509169001169 putative metal binding site [ion binding]; other site 509169001170 CobD/Cbib protein; Region: CobD_Cbib; cl00561 509169001171 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 509169001172 Interferon-induced transmembrane protein; Region: CD225; pfam04505 509169001173 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169001174 H+ Antiporter protein; Region: 2A0121; TIGR00900 509169001175 putative substrate translocation pore; other site 509169001176 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 509169001177 putative acyl-acceptor binding pocket; other site 509169001178 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 509169001179 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169001180 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_3; cd08436 509169001181 putative dimerization interface [polypeptide binding]; other site 509169001182 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 509169001183 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 509169001184 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 509169001185 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 509169001186 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 509169001187 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 509169001188 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 509169001189 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 509169001190 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 509169001191 purine monophosphate binding site [chemical binding]; other site 509169001192 dimer interface [polypeptide binding]; other site 509169001193 putative catalytic residues [active] 509169001194 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 509169001195 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 509169001196 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 509169001197 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 509169001198 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 509169001199 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 509169001200 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 509169001201 active site 509169001202 hypothetical protein; Provisional; Region: PRK12361 509169001203 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 509169001204 active site 509169001205 catalytic residues [active] 509169001206 Uncharacterized conserved protein [Function unknown]; Region: COG4278 509169001207 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 509169001208 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 509169001209 putative acyl-acceptor binding pocket; other site 509169001210 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 509169001211 hypothetical protein; Provisional; Region: PRK09946 509169001212 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169001213 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 509169001214 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 509169001215 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 509169001216 non-specific DNA binding site [nucleotide binding]; other site 509169001217 salt bridge; other site 509169001218 sequence-specific DNA binding site [nucleotide binding]; other site 509169001219 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 509169001220 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 509169001221 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 509169001222 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 509169001223 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 509169001224 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 509169001225 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 509169001226 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 509169001227 carboxyltransferase (CT) interaction site; other site 509169001228 biotinylation site [posttranslational modification]; other site 509169001229 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 509169001230 active site 509169001231 trimer interface [polypeptide binding]; other site 509169001232 dimer interface [polypeptide binding]; other site 509169001233 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 509169001234 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 509169001235 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 509169001236 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 509169001237 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 509169001238 DsbD alpha interface [polypeptide binding]; other site 509169001239 catalytic residues [active] 509169001240 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 509169001241 Endonuclease I; Region: Endonuclease_1; cl01003 509169001242 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 509169001243 oligomerisation interface [polypeptide binding]; other site 509169001244 mobile loop; other site 509169001245 roof hairpin; other site 509169001246 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 509169001247 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 509169001248 ring oligomerisation interface [polypeptide binding]; other site 509169001249 ATP/Mg binding site [chemical binding]; other site 509169001250 stacking interactions; other site 509169001251 hinge regions; other site 509169001252 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 509169001253 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 509169001254 ATP binding site [chemical binding]; other site 509169001255 putative Mg++ binding site [ion binding]; other site 509169001256 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 509169001257 nucleotide binding region [chemical binding]; other site 509169001258 ATP-binding site [chemical binding]; other site 509169001259 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 509169001260 Divergent AAA domain; Region: AAA_4; pfam04326 509169001261 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 509169001262 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 509169001263 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169001264 ABC transporter signature motif; other site 509169001265 Walker B; other site 509169001266 D-loop; other site 509169001267 H-loop/switch region; other site 509169001268 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 509169001269 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169001270 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169001272 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 509169001273 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 509169001274 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 509169001276 NeuB family; Region: NeuB; cl00496 509169001277 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 509169001278 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 509169001279 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 509169001280 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 509169001281 RNA polymerase sigma factor; Provisional; Region: PRK12528 509169001282 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 509169001283 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 509169001284 DNA binding residues [nucleotide binding] 509169001285 fec operon regulator FecR; Reviewed; Region: PRK09774 509169001286 FecR protein; Region: FecR; pfam04773 509169001287 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 509169001288 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 509169001289 N-terminal plug; other site 509169001290 ligand-binding site [chemical binding]; other site 509169001291 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 509169001292 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 509169001293 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 509169001294 metal binding triad; other site 509169001295 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 509169001296 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14109 509169001297 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 509169001298 metal binding triad; other site 509169001299 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 509169001300 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4727 509169001301 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 509169001302 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 509169001303 Protein of unknown function (DUF1022); Region: DUF1022; pfam06258 509169001304 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 509169001305 putative FMN binding site [chemical binding]; other site 509169001306 YceI-like domain; Region: YceI; cl01001 509169001307 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 509169001308 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 509169001309 FAD binding pocket [chemical binding]; other site 509169001310 FAD binding motif [chemical binding]; other site 509169001311 phosphate binding motif [ion binding]; other site 509169001312 NAD binding pocket [chemical binding]; other site 509169001313 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169001314 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 509169001315 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 509169001316 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 509169001317 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 509169001318 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 509169001319 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; cl07913 509169001320 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 509169001321 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 509169001322 Acyl transferase domain; Region: Acyl_transf_1; cl08282 509169001323 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 509169001324 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; cl15357 509169001325 transmembrane helices; other site 509169001326 Transcriptional regulators [Transcription]; Region: GntR; COG1802 509169001327 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 509169001328 DNA-binding site [nucleotide binding]; DNA binding site 509169001329 FCD domain; Region: FCD; cl11656 509169001330 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 509169001331 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 509169001332 motif II; other site 509169001333 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 509169001334 anti sigma factor interaction site; other site 509169001335 regulatory phosphorylation site [posttranslational modification]; other site 509169001336 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 509169001337 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 509169001338 dimerization interface [polypeptide binding]; other site 509169001339 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 509169001340 Lipase. 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 becoming...; Region: Lipase; cl14883 509169001341 nucleophilic elbow; other site 509169001342 catalytic triad; other site 509169001343 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 509169001344 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 509169001345 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 509169001346 dimer interface [polypeptide binding]; other site 509169001347 TPP-binding site [chemical binding]; other site 509169001348 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 509169001349 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 509169001350 putative active site [active] 509169001351 putative NTP binding site [chemical binding]; other site 509169001352 putative nucleic acid binding site [nucleotide binding]; other site 509169001353 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169001354 Domain of unknown function (DUF955); Region: DUF955; cl01076 509169001355 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169001356 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 509169001357 Integrase core domain; Region: rve; cl01316 509169001358 putative transposase OrfB; Reviewed; Region: PHA02517 509169001359 Integrase core domain; Region: rve; cl01316 509169001360 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169001362 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 509169001363 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 509169001364 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169001365 putative transposase OrfB; Reviewed; Region: PHA02517 509169001366 Integrase core domain; Region: rve; cl01316 509169001367 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 509169001368 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169001369 putative transposase OrfB; Reviewed; Region: PHA02517 509169001370 Integrase core domain; Region: rve; cl01316 509169001371 Transposase domain (DUF772); Region: DUF772; cl12084 509169001372 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 509169001374 HSP20-like domain of unknown function (DUF1813); Region: DUF1813; cl07446 509169001375 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 509169001376 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 509169001377 conserved cys residue [active] 509169001378 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169001379 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169001380 active site 509169001381 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 509169001382 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 509169001383 putative dimer interface [polypeptide binding]; other site 509169001384 N-terminal domain interface [polypeptide binding]; other site 509169001385 putative substrate binding pocket (H-site) [chemical binding]; other site 509169001386 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 509169001387 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 509169001388 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 509169001389 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169001390 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 509169001391 Zn binding site [ion binding]; other site 509169001392 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 509169001393 Putative esterase; Region: Esterase; pfam00756 509169001394 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 509169001395 Fatty acid desaturase; Region: FA_desaturase; pfam00487 509169001396 putative di-iron ligands [ion binding]; other site 509169001397 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 509169001398 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 509169001399 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 509169001400 active site 509169001401 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 509169001402 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 509169001403 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 509169001404 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 509169001405 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 509169001406 substrate binding pocket [chemical binding]; other site 509169001407 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 509169001408 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 509169001411 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169001412 Rrf2 family protein; Region: rrf2_super; TIGR00738 509169001413 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 509169001414 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 509169001415 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl10040 509169001416 Predicted archaeal methyltransferase [General function prediction only]; Region: COG2521 509169001417 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 509169001418 S-adenosylmethionine binding site [chemical binding]; other site 509169001419 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 509169001420 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 509169001421 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 509169001422 substrate binding pocket [chemical binding]; other site 509169001423 membrane-bound complex binding site; other site 509169001424 hinge residues; other site 509169001425 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 509169001426 Endoglucanase C-terminal domain/subunit and related proteins [Carbohydrate transport and metabolism]; Region: COG4305 509169001427 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 509169001428 Glycosyl hydrolases family 6; Region: Glyco_hydro_6; pfam01341 509169001429 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 509169001430 Interdomain contacts; other site 509169001431 Cytokine receptor motif; other site 509169001432 Amino acid permease; Region: AA_permease; cl00524 509169001433 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 509169001434 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 509169001435 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 509169001436 Protein of unknown function DUF124; Region: DUF124; cl00884 509169001437 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 509169001438 Protein of unknown function DUF72; Region: DUF72; cl00777 509169001439 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 509169001440 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: BaFpgNei_N_2; cd08974 509169001441 putative DNA binding site [nucleotide binding]; other site 509169001442 catalytic residue [active] 509169001443 putative H2TH interface [polypeptide binding]; other site 509169001444 putative catalytic residues [active] 509169001445 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 509169001446 GAF domain; Region: GAF; cl00853 509169001447 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 509169001448 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 509169001449 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 509169001450 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 509169001451 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 509169001452 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 509169001453 GAF domain; Region: GAF; cl00853 509169001454 PAS fold; Region: PAS_4; pfam08448 509169001455 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 509169001456 putative active site [active] 509169001457 heme pocket [chemical binding]; other site 509169001458 PAS domain S-box; Region: sensory_box; TIGR00229 509169001459 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 509169001460 putative active site [active] 509169001461 heme pocket [chemical binding]; other site 509169001462 PAS fold; Region: PAS_4; pfam08448 509169001463 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169001464 metal binding site [ion binding]; metal-binding site 509169001465 active site 509169001466 I-site; other site 509169001467 Cache domain; Region: Cache_2; cl07034 509169001468 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 509169001469 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 509169001470 dimerization interface [polypeptide binding]; other site 509169001471 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 509169001472 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 509169001473 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 transmembrane...; Region: TarH; cl00144 509169001474 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 509169001475 Cellulose binding domain; Region: CBM_2; cl02709 509169001476 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 509169001477 Permease family; Region: Xan_ur_permease; cl00967 509169001478 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 509169001479 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169001480 metal binding site [ion binding]; metal-binding site 509169001481 active site 509169001482 I-site; other site 509169001483 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 509169001484 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 509169001485 N-terminal plug; other site 509169001486 ligand-binding site [chemical binding]; other site 509169001487 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 509169001488 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 509169001489 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 509169001490 PA/protease or protease-like domain interface [polypeptide binding]; other site 509169001491 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 509169001492 metal binding site [ion binding]; metal-binding site 509169001493 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; cl15357 509169001494 transmembrane helices; other site 509169001495 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; cl15357 509169001496 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; cl15357 509169001497 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; cl15357 509169001498 Membrane glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: MdoH; COG2943 509169001499 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 509169001500 Ligand binding site; other site 509169001501 DXD motif; other site 509169001502 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 509169001503 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 509169001504 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 509169001505 Histidine kinase; Region: His_kinase; pfam06580 509169001506 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 509169001507 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 509169001508 active site 509169001509 phosphorylation site [posttranslational modification] 509169001510 intermolecular recognition site; other site 509169001511 dimerization interface [polypeptide binding]; other site 509169001512 LytTr DNA-binding domain; Region: LytTR; cl04498 509169001513 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 509169001514 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 509169001515 domain interfaces; other site 509169001516 active site 509169001517 Protein of unknown function, DUF481; Region: DUF481; cl01213 509169001518 Predicted transcriptional regulator [Transcription]; Region: COG2378 509169001519 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169001520 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 509169001521 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 509169001522 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 509169001523 aminotransferase; Validated; Region: PRK07337 509169001524 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 509169001525 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169001526 homodimer interface [polypeptide binding]; other site 509169001527 catalytic residue [active] 509169001528 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 509169001529 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 509169001530 Protein of unknown function (DUF454); Region: DUF454; cl01063 509169001531 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 509169001532 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 509169001533 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 509169001534 Protein of unknown function, DUF484; Region: DUF484; cl01228 509169001535 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 509169001536 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 509169001537 DNA binding site [nucleotide binding] 509169001538 Int/Topo IB signature motif; other site 509169001539 active site 509169001540 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169001541 putative transposase OrfB; Reviewed; Region: PHA02517 509169001542 Integrase core domain; Region: rve; cl01316 509169001543 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 509169001544 active site 509169001545 HslU subunit interaction site [polypeptide binding]; other site 509169001546 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 509169001547 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 509169001548 Walker A motif; other site 509169001549 ATP binding site [chemical binding]; other site 509169001550 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169001551 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 509169001552 magnesium-transporting ATPase; Provisional; Region: PRK15122 509169001553 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 509169001554 nucleoside/Zn binding site; other site 509169001555 dimer interface [polypeptide binding]; other site 509169001556 catalytic motif [active] 509169001557 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 509169001558 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 509169001559 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169001560 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 509169001561 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 509169001562 S-adenosylmethionine binding site [chemical binding]; other site 509169001563 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169001564 metal binding site [ion binding]; metal-binding site 509169001565 active site 509169001566 I-site; other site 509169001567 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 509169001568 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 509169001569 active site 509169001570 Zn binding site [ion binding]; other site 509169001571 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 509169001572 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 509169001573 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 509169001574 active site 509169001575 motif I; other site 509169001576 motif II; other site 509169001577 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 509169001578 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 509169001579 Trp docking motif [polypeptide binding]; other site 509169001580 dimer interface [polypeptide binding]; other site 509169001581 active site 509169001582 small subunit binding site [polypeptide binding]; other site 509169001583 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 509169001584 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 509169001585 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 509169001586 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 509169001587 Cytochrome c; Region: Cytochrom_C; cl11414 509169001588 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 509169001589 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 509169001590 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 509169001591 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 509169001592 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 509169001593 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 509169001594 NAD(P) binding site [chemical binding]; other site 509169001595 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 509169001596 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 509169001597 N-terminal plug; other site 509169001598 ligand-binding site [chemical binding]; other site 509169001599 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 509169001600 GAF domain; Region: GAF; cl00853 509169001601 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 509169001602 Walker A motif; other site 509169001603 ATP binding site [chemical binding]; other site 509169001604 Walker B motif; other site 509169001605 arginine finger; other site 509169001606 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169001607 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 509169001608 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 509169001609 substrate binding site [chemical binding]; other site 509169001610 ATP binding site [chemical binding]; other site 509169001611 rod shape-determining protein MreB; Provisional; Region: PRK13927 509169001612 Cell division protein FtsA; Region: FtsA; cl11496 509169001613 rod shape-determining protein MreC; Region: MreC; pfam04085 509169001614 rod shape-determining protein MreD; Region: MreD; cl01087 509169001615 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 509169001616 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 509169001617 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 509169001618 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 509169001619 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 509169001620 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169001621 Walker A motif; other site 509169001622 ATP binding site [chemical binding]; other site 509169001623 Walker B motif; other site 509169001624 Integrase core domain; Region: rve; cl01316 509169001625 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169001626 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169001627 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169001628 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 509169001629 lytic murein transglycosylase; Region: MltB_2; TIGR02283 509169001630 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 509169001631 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 509169001632 Sporulation related domain; Region: SPOR; cl10051 509169001633 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 509169001634 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 509169001635 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 509169001636 Protein of unknown function (DUF493); Region: DUF493; cl01102 509169001637 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 509169001638 lipoyl synthase; Provisional; Region: PRK05481 509169001639 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 509169001640 FeS/SAM binding site; other site 509169001641 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 509169001642 C-terminal peptidase (prc); Region: prc; TIGR00225 509169001643 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 509169001644 protein binding site [polypeptide binding]; other site 509169001645 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 509169001646 Catalytic dyad [active] 509169001647 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 509169001648 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 509169001649 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 509169001650 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169001651 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 509169001652 putative dimerization interface [polypeptide binding]; other site 509169001653 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 509169001654 putative catalytic site [active] 509169001655 putative metal binding site [ion binding]; other site 509169001656 putative phosphate binding site [ion binding]; other site 509169001657 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 509169001658 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional proteins, also containing a Nudix hydrolase domain; Region: NMNAT_Nudix; cd02168 509169001659 active site 509169001660 (T/H)XGH motif; other site 509169001661 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 509169001662 nudix motif; other site 509169001663 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 509169001664 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 509169001665 active site 509169001666 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 509169001667 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 509169001668 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 509169001669 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169001670 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169001671 putative oxidoreductase; Provisional; Region: PRK11579 509169001672 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 509169001673 BON domain; Region: BON; cl02771 509169001674 CHASE3 domain; Region: CHASE3; cl05000 509169001675 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 509169001676 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169001677 dimer interface [polypeptide binding]; other site 509169001678 phosphorylation site [posttranslational modification] 509169001679 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 509169001680 ATP binding site [chemical binding]; other site 509169001681 Mg2+ binding site [ion binding]; other site 509169001682 G-X-G motif; other site 509169001683 Response regulator receiver domain; Region: Response_reg; pfam00072 509169001684 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 509169001685 active site 509169001686 phosphorylation site [posttranslational modification] 509169001687 intermolecular recognition site; other site 509169001688 dimerization interface [polypeptide binding]; other site 509169001689 Response regulator receiver domain; Region: Response_reg; pfam00072 509169001690 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 509169001691 active site 509169001692 phosphorylation site [posttranslational modification] 509169001693 intermolecular recognition site; other site 509169001694 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 509169001695 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 509169001696 ATP binding site [chemical binding]; other site 509169001697 Mg2+ binding site [ion binding]; other site 509169001698 G-X-G motif; other site 509169001699 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 509169001700 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 509169001701 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 509169001702 catalytic center binding site [active] 509169001703 ATP binding site [chemical binding]; other site 509169001704 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 509169001705 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169001706 NAD(P) binding site [chemical binding]; other site 509169001707 active site 509169001708 Uncharacterized conserved protein [Function unknown]; Region: COG1565 509169001709 Uncharacterized ACR, COG1565; Region: DUF185; pfam02636 509169001712 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 509169001713 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169001714 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169001715 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 509169001716 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 509169001717 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 509169001718 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 509169001719 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 509169001720 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 509169001721 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 509169001722 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 509169001723 Walker A motif; other site 509169001724 ATP binding site [chemical binding]; other site 509169001725 Walker B motif; other site 509169001726 general secretion pathway protein F; Region: GspF; TIGR02120 509169001727 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 509169001728 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 509169001729 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 509169001730 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 509169001731 Bacterial type II secretion system protein G; Region: GSPII_G; pfam08334 509169001732 Type II transport protein GspH; Region: GspH; pfam12019 509169001733 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 509169001734 general secretion pathway protein J; Region: gspJ; TIGR01711 509169001735 Pseudopilin GspJ; Region: GspJ; pfam11612 509169001736 General secretion pathway protein K; Region: GspK; pfam03934 509169001737 GspL cytoplasmic actin-ATPase-like region; Region: GspL; pfam05134 509169001738 General secretion pathway, M protein; Region: GspM; cl01222 509169001739 Bacterial type II secretion system protein N; Region: GSPII_N; pfam01203 509169001740 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 509169001741 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 509169001742 DNA-binding site [nucleotide binding]; DNA binding site 509169001743 UTRA domain; Region: UTRA; cl01230 509169001744 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 509169001745 glucose/galactose transporter; Region: gluP; TIGR01272 509169001746 Transcriptional regulators [Transcription]; Region: PurR; COG1609 509169001747 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 509169001748 DNA binding site [nucleotide binding] 509169001749 domain linker motif; other site 509169001750 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 509169001751 putative dimerization interface [polypeptide binding]; other site 509169001752 putative ligand binding site [chemical binding]; other site 509169001753 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 509169001754 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 509169001755 dimer interface [polypeptide binding]; other site 509169001756 active site 509169001757 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 509169001758 dimer interface [polypeptide binding]; other site 509169001759 active site 509169001760 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 509169001761 active site 509169001762 dimer interface [polypeptide binding]; other site 509169001763 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 509169001764 Active site serine [active] 509169001765 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 509169001766 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169001767 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 509169001768 ligand-binding site [chemical binding]; other site 509169001769 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 509169001770 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 509169001771 active site 509169001772 NTP binding site [chemical binding]; other site 509169001773 metal binding triad [ion binding]; metal-binding site 509169001774 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 509169001775 lytic murein transglycosylase; Provisional; Region: PRK11619 509169001776 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 509169001777 N-acetyl-D-glucosamine binding site [chemical binding]; other site 509169001778 catalytic residue [active] 509169001779 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169001780 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169001781 choline dehydrogenase; Validated; Region: PRK02106 509169001782 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169001783 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 509169001784 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 509169001785 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 509169001786 NAD(P) binding site [chemical binding]; other site 509169001787 catalytic residues [active] 509169001788 BCCT family transporter; Region: BCCT; cl00569 509169001789 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 509169001790 putative catalytic site [active] 509169001791 putative metal binding site [ion binding]; other site 509169001792 putative phosphate binding site [ion binding]; other site 509169001793 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 509169001794 putative catalytic site [active] 509169001795 putative phosphate binding site [ion binding]; other site 509169001796 putative metal binding site [ion binding]; other site 509169001797 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 509169001798 catalytic residues [active] 509169001799 hinge region; other site 509169001800 alpha helical domain; other site 509169001801 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 509169001802 catalytic residues [active] 509169001803 hinge region; other site 509169001804 alpha helical domain; other site 509169001805 Cytochrome c; Region: Cytochrom_C; cl11414 509169001806 Cytochrome c; Region: Cytochrom_C; cl11414 509169001807 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 509169001808 G1 box; other site 509169001809 GTP/Mg2+ binding site [chemical binding]; other site 509169001810 Switch I region; other site 509169001811 G2 box; other site 509169001812 G3 box; other site 509169001813 Switch II region; other site 509169001814 G4 box; other site 509169001815 G5 box; other site 509169001816 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 509169001817 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 509169001818 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 509169001819 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 509169001820 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 509169001821 ATP binding site [chemical binding]; other site 509169001822 Mg2+ binding site [ion binding]; other site 509169001823 G-X-G motif; other site 509169001824 osmolarity response regulator; Provisional; Region: ompR; PRK09468 509169001825 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 509169001826 active site 509169001827 phosphorylation site [posttranslational modification] 509169001828 intermolecular recognition site; other site 509169001829 dimerization interface [polypeptide binding]; other site 509169001830 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 509169001831 DNA binding site [nucleotide binding] 509169001832 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 509169001833 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 509169001834 gating phenylalanine in ion channel; other site 509169001835 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 509169001836 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169001837 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 509169001838 putative dimerization interface [polypeptide binding]; other site 509169001839 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 509169001840 putative metal binding site [ion binding]; other site 509169001841 putative homotetramer interface [polypeptide binding]; other site 509169001842 putative homodimer interface [polypeptide binding]; other site 509169001843 putative homodimer-homodimer interface [polypeptide binding]; other site 509169001844 putative allosteric switch controlling residues; other site 509169001845 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 509169001846 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 509169001847 substrate binding site [chemical binding]; other site 509169001848 catalytic Zn binding site [ion binding]; other site 509169001849 NAD binding site [chemical binding]; other site 509169001850 structural Zn binding site [ion binding]; other site 509169001851 dimer interface [polypeptide binding]; other site 509169001852 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 509169001853 Predicted esterase [General function prediction only]; Region: COG0627 509169001854 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 509169001855 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 509169001856 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 509169001857 DNA-binding site [nucleotide binding]; DNA binding site 509169001858 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 509169001859 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169001860 homodimer interface [polypeptide binding]; other site 509169001861 catalytic residue [active] 509169001862 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 509169001863 Phenazine biosynthesis-like protein; Region: PhzC-PhzF; pfam02567 509169001864 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 509169001865 EamA-like transporter family; Region: EamA; cl01037 509169001866 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 509169001867 Glycosyl hydrolase family 12; Region: Glyco_hydro_12; cl03302 509169001868 Glycosyl hydrolase family 12; Region: Glyco_hydro_12; cl03302 509169001871 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 509169001872 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 509169001873 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 509169001874 active site 509169001875 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 509169001876 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 509169001877 active site 509169001878 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 509169001879 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 509169001880 putative GSH binding site [chemical binding]; other site 509169001881 catalytic residues [active] 509169001882 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 509169001883 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 509169001884 active site residue [active] 509169001885 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 509169001886 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 509169001887 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_1; cd01832 509169001888 active site 509169001889 catalytic triad [active] 509169001890 oxyanion hole [active] 509169001891 alanine aminotransferase; Validated; Region: PRK08363 509169001892 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 509169001893 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169001894 homodimer interface [polypeptide binding]; other site 509169001895 catalytic residue [active] 509169001896 GTPase RsgA; Reviewed; Region: PRK01889 509169001897 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 motifs...; Region: YjeQ_engC; cd01854 509169001898 GTPase/OB domain interface [polypeptide binding]; other site 509169001899 GTPase/Zn-binding domain interface [polypeptide binding]; other site 509169001900 GTP/Mg2+ binding site [chemical binding]; other site 509169001901 G4 box; other site 509169001902 G5 box; other site 509169001903 G1 box; other site 509169001904 Switch I region; other site 509169001905 G2 box; other site 509169001906 G3 box; other site 509169001907 Switch II region; other site 509169001908 conserved hypothetical protein; Region: QEGLA; TIGR02421 509169001909 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 509169001910 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 509169001911 potential catalytic triad [active] 509169001912 conserved cys residue [active] 509169001913 trehalose synthase; Region: treS_nterm; TIGR02456 509169001914 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 509169001915 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169001916 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169001917 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169001918 putative substrate translocation pore; other site 509169001919 Major Facilitator Superfamily; Region: MFS_1; pfam07690 509169001920 Transcriptional regulators [Transcription]; Region: PurR; COG1609 509169001921 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 509169001922 DNA binding site [nucleotide binding] 509169001923 domain linker motif; other site 509169001924 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 509169001925 putative dimerization interface [polypeptide binding]; other site 509169001926 putative ligand binding site [chemical binding]; other site 509169001927 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 509169001928 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169001929 NAD(P) binding site [chemical binding]; other site 509169001930 active site 509169001931 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 509169001932 Citrate transporter; Region: CitMHS; pfam03600 509169001933 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 509169001934 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 509169001935 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 509169001936 active site 509169001937 phosphorylation site [posttranslational modification] 509169001938 intermolecular recognition site; other site 509169001939 dimerization interface [polypeptide binding]; other site 509169001940 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 509169001941 DNA binding site [nucleotide binding] 509169001942 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 509169001943 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 509169001944 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 509169001945 ATP binding site [chemical binding]; other site 509169001946 Mg2+ binding site [ion binding]; other site 509169001947 G-X-G motif; other site 509169001948 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 509169001949 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 509169001950 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 509169001951 active site 509169001952 phosphorylation site [posttranslational modification] 509169001953 intermolecular recognition site; other site 509169001954 dimerization interface [polypeptide binding]; other site 509169001955 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 509169001956 dimerization interface [polypeptide binding]; other site 509169001957 DNA binding residues [nucleotide binding] 509169001958 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 509169001959 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 509169001960 PAS fold; Region: PAS_7; pfam12860 509169001961 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169001962 dimer interface [polypeptide binding]; other site 509169001963 phosphorylation site [posttranslational modification] 509169001964 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 509169001965 ATP binding site [chemical binding]; other site 509169001966 Mg2+ binding site [ion binding]; other site 509169001967 G-X-G motif; other site 509169001968 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 509169001969 Response regulator receiver domain; Region: Response_reg; pfam00072 509169001970 active site 509169001971 phosphorylation site [posttranslational modification] 509169001972 intermolecular recognition site; other site 509169001973 dimerization interface [polypeptide binding]; other site 509169001974 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 509169001975 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 509169001976 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 509169001977 Malic enzyme, N-terminal domain; Region: malic; pfam00390 509169001978 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 509169001979 putative NAD(P) binding site [chemical binding]; other site 509169001980 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 509169001981 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 509169001982 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 509169001983 Zinc-finger domain; Region: zf-CHCC; cl01821 509169001984 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 509169001985 putative ADP-binding pocket [chemical binding]; other site 509169001986 O-Antigen ligase; Region: Wzy_C; cl04850 509169001987 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 509169001988 putative acyl-acceptor binding pocket; other site 509169001989 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 509169001990 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 509169001991 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 509169001992 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 509169001993 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 509169001994 S-adenosylmethionine binding site [chemical binding]; other site 509169001995 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 509169001996 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169001997 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 509169001998 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 509169001999 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169002000 metal binding site [ion binding]; metal-binding site 509169002001 active site 509169002002 I-site; other site 509169002003 Transcriptional regulator [Transcription]; Region: LysR; COG0583 509169002004 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169002005 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 509169002006 dimerization interface [polypeptide binding]; other site 509169002007 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 509169002008 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 509169002009 substrate binding site [chemical binding]; other site 509169002010 ligand binding site [chemical binding]; other site 509169002011 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 509169002012 substrate binding site [chemical binding]; other site 509169002013 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 509169002014 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 509169002015 S-adenosylmethionine binding site [chemical binding]; other site 509169002016 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 509169002017 tartrate dehydrogenase; Provisional; Region: PRK08194 509169002018 2-isopropylmalate synthase; Validated; Region: PRK00915 509169002019 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 509169002020 active site 509169002021 catalytic residues [active] 509169002022 metal binding site [ion binding]; metal-binding site 509169002023 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 509169002024 hypothetical protein; Provisional; Region: PRK06815 509169002025 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 509169002026 tetramer interface [polypeptide binding]; other site 509169002027 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169002028 catalytic residue [active] 509169002029 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 509169002030 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 509169002031 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 509169002032 PYR/PP interface [polypeptide binding]; other site 509169002033 dimer interface [polypeptide binding]; other site 509169002034 TPP binding site [chemical binding]; other site 509169002035 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 509169002036 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 509169002037 TPP-binding site [chemical binding]; other site 509169002038 dimer interface [polypeptide binding]; other site 509169002039 ketol-acid reductoisomerase; Provisional; Region: PRK05479 509169002040 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169002041 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 509169002042 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 509169002043 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 509169002044 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 509169002045 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 transmembrane...; Region: TarH; cl00144 509169002046 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 509169002047 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 509169002048 ThiC family; Region: ThiC; cl08031 509169002051 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 509169002052 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169002053 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169002054 Transposase domain (DUF772); Region: DUF772; cl12084 509169002055 Response regulator receiver domain; Region: Response_reg; pfam00072 509169002056 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 509169002057 active site 509169002058 phosphorylation site [posttranslational modification] 509169002059 intermolecular recognition site; other site 509169002060 dimerization interface [polypeptide binding]; other site 509169002061 HDOD domain; Region: HDOD; pfam08668 509169002062 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 509169002063 dimer interface [polypeptide binding]; other site 509169002064 substrate binding site [chemical binding]; other site 509169002065 metal binding sites [ion binding]; metal-binding site 509169002066 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 509169002067 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 509169002068 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 509169002069 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 509169002070 active site 509169002071 ADP/pyrophosphate binding site [chemical binding]; other site 509169002072 dimerization interface [polypeptide binding]; other site 509169002073 allosteric effector site; other site 509169002074 fructose-1,6-bisphosphate binding site; other site 509169002075 adenylate kinase; Reviewed; Region: adk; PRK00279 509169002076 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 509169002077 AMP-binding site [chemical binding]; other site 509169002078 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 509169002079 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 509169002080 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 509169002081 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 509169002082 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 509169002083 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 509169002084 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 509169002085 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 509169002086 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 509169002087 active site 509169002088 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 509169002089 short chain dehydrogenase; Provisional; Region: PRK08278 509169002090 human hydroxysteroid dehydrogenase-like protein 2 (HSDL2), classical (c) SDRs; Region: HSDL2_SDR_c; cd09762 509169002091 NAD(P) binding site [chemical binding]; other site 509169002092 homodimer interface [polypeptide binding]; other site 509169002093 active site 509169002094 Ion transport protein; Region: Ion_trans; pfam00520 509169002095 Ion channel; Region: Ion_trans_2; cl11596 509169002096 Double zinc ribbon; Region: DZR; pfam12773 509169002097 acetylornithine transaminase protein; Provisional; Region: argD; PRK04612 509169002098 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 509169002099 inhibitor-cofactor binding pocket; inhibition site 509169002100 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169002101 catalytic residue [active] 509169002104 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 509169002105 N-terminal plug; other site 509169002106 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 509169002107 ligand-binding site [chemical binding]; other site 509169002108 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169002109 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 509169002110 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169002111 Cytochrome c; Region: Cytochrom_C; cl11414 509169002112 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_3; cd06151 509169002113 homotrimer interaction site [polypeptide binding]; other site 509169002114 putative active site [active] 509169002115 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 509169002116 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 509169002117 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169002118 homodimer interface [polypeptide binding]; other site 509169002119 catalytic residue [active] 509169002120 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 509169002121 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 509169002122 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 509169002123 DNA binding residues [nucleotide binding] 509169002124 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 509169002125 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 509169002126 inhibitor-cofactor binding pocket; inhibition site 509169002127 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169002128 catalytic residue [active] 509169002129 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 509169002130 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 509169002131 thiamine phosphate binding site [chemical binding]; other site 509169002132 active site 509169002133 pyrophosphate binding site [ion binding]; other site 509169002134 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 509169002135 Rubredoxin; Region: Rubredoxin; pfam00301 509169002136 iron binding site [ion binding]; other site 509169002137 Uncharacterized conserved protein [Function unknown]; Region: COG2912 509169002138 hypothetical protein; Provisional; Region: PRK10941 509169002139 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 509169002140 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 509169002141 tetramer (dimer of dimers) interface [polypeptide binding]; other site 509169002142 active site 509169002143 dimer interface [polypeptide binding]; other site 509169002144 EVE domain; Region: EVE; cl00728 509169002145 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 509169002146 Cell division protein ZapA; Region: ZapA; cl01146 509169002147 TIGR02449 family protein; Region: TIGR02449 509169002148 Uncharacterised protein family (UPF0149); Region: UPF0149; cl01173 509169002149 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 509169002150 proline aminopeptidase P II; Provisional; Region: PRK10879 509169002151 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 509169002152 active site 509169002153 proline dipeptidase; Provisional; Region: PRK13607 509169002154 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 509169002155 active site 509169002156 PilZ domain; Region: PilZ; cl01260 509169002157 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 509169002158 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 509169002159 HemN family oxidoreductase; Provisional; Region: PRK05660 509169002160 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 509169002161 FeS/SAM binding site; other site 509169002162 HemN C-terminal region; Region: HemN_C; pfam06969 509169002163 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 509169002164 active site 509169002165 dimerization interface [polypeptide binding]; other site 509169002166 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 509169002167 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_16; cd07263 509169002168 ribonuclease PH; Reviewed; Region: rph; PRK00173 509169002169 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 509169002170 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 509169002171 hypothetical protein; Provisional; Region: PRK11820 509169002172 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 509169002173 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 509169002174 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 509169002175 catalytic site [active] 509169002176 G-X2-G-X-G-K; other site 509169002177 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 509169002178 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 509169002179 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 509169002180 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 509169002181 synthetase active site [active] 509169002182 NTP binding site [chemical binding]; other site 509169002183 metal binding site [ion binding]; metal-binding site 509169002184 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 509169002185 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 509169002186 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 509169002187 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169002188 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_1; cd08447 509169002189 putative dimerization interface [polypeptide binding]; other site 509169002190 putative substrate binding pocket [chemical binding]; other site 509169002191 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 509169002192 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 509169002193 putative active site [active] 509169002194 catalytic residue [active] 509169002195 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 509169002196 dimer interface [polypeptide binding]; other site 509169002197 NADP binding site [chemical binding]; other site 509169002198 catalytic residues [active] 509169002199 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169002200 D-galactonate transporter; Region: 2A0114; TIGR00893 509169002201 putative substrate translocation pore; other site 509169002202 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169002203 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 509169002204 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 509169002205 active site 509169002206 tetramer interface [polypeptide binding]; other site 509169002207 outer membrane porin, OprD family; Region: OprD; pfam03573 509169002208 galactarate dehydratase; Region: galactar-dH20; TIGR03248 509169002209 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 509169002210 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 509169002211 homotrimer interaction site [polypeptide binding]; other site 509169002212 putative active site [active] 509169002213 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 509169002214 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 509169002215 generic binding surface II; other site 509169002216 ssDNA binding site; other site 509169002217 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 509169002218 ATP binding site [chemical binding]; other site 509169002219 putative Mg++ binding site [ion binding]; other site 509169002220 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 509169002221 nucleotide binding region [chemical binding]; other site 509169002222 ATP-binding site [chemical binding]; other site 509169002223 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 509169002224 active site 509169002225 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 509169002226 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 509169002227 dimer interface [polypeptide binding]; other site 509169002228 Citrate synthase; Region: Citrate_synt; pfam00285 509169002229 active site 509169002230 citrylCoA binding site [chemical binding]; other site 509169002231 NADH binding [chemical binding]; other site 509169002232 cationic pore residues; other site 509169002233 oxalacetate/citrate binding site [chemical binding]; other site 509169002234 coenzyme A binding site [chemical binding]; other site 509169002235 catalytic triad [active] 509169002236 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 509169002237 Transglycosylase; Region: Transgly; cl07896 509169002238 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 509169002239 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 509169002240 Competence protein A; Region: Competence_A; pfam11104 509169002241 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 509169002242 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 509169002243 Pilus assembly protein, PilO; Region: PilO; cl01234 509169002244 Pilus assembly protein, PilP; Region: PilP; cl01235 509169002245 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 509169002246 Secretin and TonB N terminus short domain; Region: STN; cl06624 509169002247 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 509169002248 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 509169002249 MoxR-like ATPases [General function prediction only]; Region: COG0714 509169002250 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 509169002251 Walker A motif; other site 509169002252 ATP binding site [chemical binding]; other site 509169002253 Walker B motif; other site 509169002254 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169002255 arginine finger; other site 509169002256 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 509169002257 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 509169002258 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 509169002259 metal ion-dependent adhesion site (MIDAS); other site 509169002260 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 509169002261 metal ion-dependent adhesion site (MIDAS); other site 509169002262 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 509169002263 transketolase; Reviewed; Region: PRK12753 509169002264 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 509169002265 TPP-binding site [chemical binding]; other site 509169002266 dimer interface [polypeptide binding]; other site 509169002267 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 509169002268 PYR/PP interface [polypeptide binding]; other site 509169002269 dimer interface [polypeptide binding]; other site 509169002270 TPP binding site [chemical binding]; other site 509169002271 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 509169002272 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 509169002273 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 509169002274 Integrase core domain; Region: rve; cl01316 509169002275 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169002276 Peptidase family M23; Region: Peptidase_M23; pfam01551 509169002277 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 509169002278 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 509169002279 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 509169002280 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 509169002281 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 509169002282 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169002283 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169002284 Catalytic domain of Streptomyces antibioticus phosphatidylinositol-specific phospholipase C1-like proteins; Region: PI-PLCc_SaPLC1_like; cd08589 509169002285 putative active site [active] 509169002286 catalytic site [active] 509169002287 putative metal binding site [ion binding]; other site 509169002288 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 509169002289 Flavin Reductases; Region: FlaRed; cl00801 509169002290 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169002291 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 509169002292 Walker A/P-loop; other site 509169002293 ATP binding site [chemical binding]; other site 509169002294 Q-loop/lid; other site 509169002295 ABC transporter signature motif; other site 509169002296 Walker B; other site 509169002297 D-loop; other site 509169002298 H-loop/switch region; other site 509169002299 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 509169002300 dimer interface [polypeptide binding]; other site 509169002301 conserved gate region; other site 509169002302 putative PBP binding loops; other site 509169002303 ABC-ATPase subunit interface; other site 509169002304 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 509169002305 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 509169002306 S1/P1 Nuclease; Region: S1-P1_nuclease; pfam02265 509169002307 Surface antigen; Region: Surface_Ag_2; cl01155 509169002308 Surface antigen; Region: Surface_Ag_2; cl01155 509169002309 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 509169002310 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 509169002311 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 509169002312 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 509169002313 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 509169002314 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 509169002315 substrate binding site [chemical binding]; other site 509169002316 hinge regions; other site 509169002317 ADP binding site [chemical binding]; other site 509169002318 catalytic site [active] 509169002319 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 509169002320 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 509169002321 active site 509169002322 motif I; other site 509169002323 motif II; other site 509169002324 pyruvate kinase; Provisional; Region: PRK05826 509169002325 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; cl09155 509169002326 domain interfaces; other site 509169002327 active site 509169002328 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 509169002329 active site 509169002330 intersubunit interface [polypeptide binding]; other site 509169002331 catalytic residue [active] 509169002332 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 509169002333 putative ADP-ribose binding site [chemical binding]; other site 509169002334 putative active site [active] 509169002335 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 509169002336 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 509169002337 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 509169002338 dimer interface [polypeptide binding]; other site 509169002339 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169002340 catalytic residue [active] 509169002341 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 509169002342 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 509169002343 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12680 509169002344 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169002345 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 509169002346 dimerization interface [polypeptide binding]; other site 509169002347 GAF domain; Region: GAF; cl00853 509169002348 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 509169002349 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 509169002350 ATP binding site [chemical binding]; other site 509169002351 G-X-G motif; other site 509169002352 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 509169002353 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 509169002354 N-terminal plug; other site 509169002355 ligand-binding site [chemical binding]; other site 509169002356 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 509169002357 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 509169002358 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 509169002359 Active Sites [active] 509169002360 sulfite reductase subunit beta; Provisional; Region: PRK13504 509169002361 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 509169002362 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 509169002363 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 509169002364 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 509169002365 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 509169002366 FAD binding pocket [chemical binding]; other site 509169002367 conserved FAD binding motif [chemical binding]; other site 509169002368 phosphate binding motif [ion binding]; other site 509169002369 beta-alpha-beta structure motif; other site 509169002370 NAD binding pocket [chemical binding]; other site 509169002371 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 509169002372 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 509169002373 Active Sites [active] 509169002374 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 509169002375 CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which...; Region: CysN_ATPS; cd04166 509169002376 CysD dimerization site [polypeptide binding]; other site 509169002377 G1 box; other site 509169002378 putative GEF interaction site [polypeptide binding]; other site 509169002379 GTP/Mg2+ binding site [chemical binding]; other site 509169002380 Switch I region; other site 509169002381 G2 box; other site 509169002382 G3 box; other site 509169002383 Switch II region; other site 509169002384 G4 box; other site 509169002385 G5 box; other site 509169002386 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 509169002387 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 509169002388 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 of...; Region: APSK; cd02027 509169002389 ligand-binding site [chemical binding]; other site 509169002390 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 509169002391 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 509169002392 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 509169002393 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 509169002394 Zn binding site [ion binding]; other site 509169002395 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 509169002396 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 509169002397 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 509169002398 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 509169002399 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 509169002400 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 509169002401 Carboxylesterase family; Region: COesterase; pfam00135 509169002402 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 509169002403 substrate binding pocket [chemical binding]; other site 509169002404 catalytic triad [active] 509169002405 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 509169002406 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 509169002407 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 509169002408 domain; Region: Glyco_hydro_2; pfam00703 509169002409 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 509169002410 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169002411 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169002412 Glycosyl hydrolases family 6; Region: Glyco_hydro_6; pfam01341 509169002413 Transcriptional regulators [Transcription]; Region: PurR; COG1609 509169002414 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 509169002415 DNA binding site [nucleotide binding] 509169002416 domain linker motif; other site 509169002417 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 509169002418 putative dimerization interface [polypeptide binding]; other site 509169002419 putative ligand binding site [chemical binding]; other site 509169002420 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 509169002421 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 509169002422 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 509169002423 PA/protease or protease-like domain interface [polypeptide binding]; other site 509169002424 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 509169002425 metal binding site [ion binding]; metal-binding site 509169002426 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 509169002427 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 509169002428 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 509169002429 iron-sulfur cluster [ion binding]; other site 509169002430 [2Fe-2S] cluster binding site [ion binding]; other site 509169002431 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 509169002432 transmembrane helices; other site 509169002433 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; cl15357 509169002434 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; cl15357 509169002435 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 509169002436 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 509169002437 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 509169002438 ThiS interaction site; other site 509169002439 putative active site [active] 509169002440 tetramer interface [polypeptide binding]; other site 509169002441 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 509169002442 thiS-thiF/thiG interaction site; other site 509169002443 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 509169002444 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 509169002445 active site 509169002446 catalytic triad [active] 509169002447 oxyanion hole [active] 509169002448 Autotransporter beta-domain; Region: Autotransporter; cl02365 509169002449 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 509169002450 Int/Topo IB signature motif; other site 509169002451 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 509169002452 sequence-specific DNA binding site [nucleotide binding]; other site 509169002453 salt bridge; other site 509169002454 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 509169002455 Phage integrase family; Region: Phage_integrase; pfam00589 509169002456 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 509169002457 Int/Topo IB signature motif; other site 509169002458 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 509169002459 HEPN domain; Region: HEPN; cl00824 509169002460 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 509169002461 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 509169002462 MPN+ (JAMM) motif; other site 509169002463 Zinc-binding site [ion binding]; other site 509169002464 Protein of unknown function (DUF1629); Region: DUF1629; pfam07791 509169002465 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 509169002466 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 509169002467 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169002468 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 509169002469 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169002470 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 509169002471 MobA/MobL family; Region: MobA_MobL; pfam03389 509169002472 H-NS histone family; Region: Histone_HNS; pfam00816 509169002473 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 509169002474 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 509169002475 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 509169002476 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 509169002477 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 509169002478 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 509169002479 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 509169002480 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 509169002481 active site 509169002482 phosphorylation site [posttranslational modification] 509169002483 intermolecular recognition site; other site 509169002484 dimerization interface [polypeptide binding]; other site 509169002485 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 509169002486 DNA binding site [nucleotide binding] 509169002487 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 509169002488 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169002489 dimer interface [polypeptide binding]; other site 509169002490 phosphorylation site [posttranslational modification] 509169002491 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 509169002492 ATP binding site [chemical binding]; other site 509169002493 Mg2+ binding site [ion binding]; other site 509169002494 G-X-G motif; other site 509169002495 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 509169002496 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 509169002497 HSP20-like domain of unknown function (DUF1813); Region: DUF1813; cl07446 509169002498 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 509169002499 CoA-binding site [chemical binding]; other site 509169002500 ATP-binding [chemical binding]; other site 509169002501 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 509169002502 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 509169002503 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 509169002504 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 509169002505 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 509169002506 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 509169002507 Pilin (bacterial filament); Region: Pilin; pfam00114 509169002508 Sulfatase; Region: Sulfatase; cl10460 509169002509 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]; Region: COG4262 509169002510 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 509169002511 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 509169002512 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 509169002513 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 509169002514 Walker A motif; other site 509169002515 ATP binding site [chemical binding]; other site 509169002516 Walker B motif; other site 509169002517 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 509169002518 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 509169002519 active site 509169002520 phosphorylation site [posttranslational modification] 509169002521 intermolecular recognition site; other site 509169002522 dimerization interface [polypeptide binding]; other site 509169002523 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 509169002524 Walker A motif; other site 509169002525 ATP binding site [chemical binding]; other site 509169002526 Walker B motif; other site 509169002527 arginine finger; other site 509169002528 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169002529 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 509169002530 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169002531 dimer interface [polypeptide binding]; other site 509169002532 phosphorylation site [posttranslational modification] 509169002533 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 509169002534 ATP binding site [chemical binding]; other site 509169002535 Mg2+ binding site [ion binding]; other site 509169002536 G-X-G motif; other site 509169002537 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 509169002538 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 509169002539 CoA-ligase; Region: Ligase_CoA; pfam00549 509169002540 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 509169002541 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169002542 CoA-ligase; Region: Ligase_CoA; pfam00549 509169002543 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15375 509169002544 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 509169002545 NAD synthetase; Provisional; Region: PRK13981 509169002546 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 509169002547 multimer interface [polypeptide binding]; other site 509169002548 active site 509169002549 catalytic triad [active] 509169002550 protein interface 1 [polypeptide binding]; other site 509169002551 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 509169002552 homodimer interface [polypeptide binding]; other site 509169002553 NAD binding pocket [chemical binding]; other site 509169002554 ATP binding pocket [chemical binding]; other site 509169002555 Mg binding site [ion binding]; other site 509169002556 active-site loop [active] 509169002557 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 509169002558 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 509169002559 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 and...; Region: PseudoU_synth_RluCD_like; cd02869 509169002560 active site 509169002561 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 509169002562 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 509169002563 Protein of unknown function, DUF393; Region: DUF393; cl01136 509169002564 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 509169002565 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 transmembrane...; Region: TarH; cl00144 509169002566 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 509169002567 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 509169002568 Trp docking motif [polypeptide binding]; other site 509169002569 putative active site [active] 509169002570 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 509169002571 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 509169002572 active site 509169002573 homotetramer interface [polypeptide binding]; other site 509169002574 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 509169002575 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 509169002576 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 509169002577 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 509169002578 active site 509169002579 motif I; other site 509169002580 motif II; other site 509169002581 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 509169002582 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 509169002583 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 509169002584 N-terminal plug; other site 509169002585 ligand-binding site [chemical binding]; other site 509169002586 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 509169002587 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 509169002588 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 509169002589 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 509169002590 glutathione s-transferase; Provisional; Region: PTZ00057 509169002591 GSH binding site (G-site) [chemical binding]; other site 509169002592 C-terminal domain interface [polypeptide binding]; other site 509169002593 dimer interface [polypeptide binding]; other site 509169002594 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 509169002595 dimer interface [polypeptide binding]; other site 509169002596 N-terminal domain interface [polypeptide binding]; other site 509169002597 substrate binding pocket (H-site) [chemical binding]; other site 509169002598 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 509169002599 GIY-YIG motif/motif A; other site 509169002600 putative active site [active] 509169002601 putative metal binding site [ion binding]; other site 509169002602 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169002603 H-loop/switch region; other site 509169002604 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 509169002605 Clp amino terminal domain; Region: Clp_N; pfam02861 509169002606 Clp amino terminal domain; Region: Clp_N; pfam02861 509169002607 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 509169002608 Walker A motif; other site 509169002609 ATP binding site [chemical binding]; other site 509169002610 Walker B motif; other site 509169002611 arginine finger; other site 509169002612 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 509169002613 Walker A motif; other site 509169002614 ATP binding site [chemical binding]; other site 509169002615 Walker B motif; other site 509169002616 arginine finger; other site 509169002617 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 509169002618 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 509169002619 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 509169002620 homodimer interface [polypeptide binding]; other site 509169002621 substrate-cofactor binding pocket; other site 509169002622 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169002623 catalytic residue [active] 509169002624 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 509169002625 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 509169002626 N-terminal plug; other site 509169002627 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169002628 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 509169002629 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169002630 Walker A motif; other site 509169002631 ATP binding site [chemical binding]; other site 509169002632 Walker B motif; other site 509169002633 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 509169002634 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169002635 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 509169002636 catalytic triad [active] 509169002637 CobD/Cbib protein; Region: CobD_Cbib; cl00561 509169002638 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 509169002639 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 509169002640 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 509169002641 catalytic residue [active] 509169002642 cobyric acid synthase; Provisional; Region: PRK00784 509169002643 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169002644 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169002645 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 509169002646 catalytic triad [active] 509169002647 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 509169002648 homotrimer interface [polypeptide binding]; other site 509169002649 Walker A motif; other site 509169002650 GTP binding site [chemical binding]; other site 509169002651 Walker B motif; other site 509169002652 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 509169002653 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 509169002654 putative dimer interface [polypeptide binding]; other site 509169002655 active site pocket [active] 509169002656 putative cataytic base [active] 509169002657 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 509169002658 catalytic core [active] 509169002659 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 509169002660 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 509169002661 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 509169002662 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 509169002663 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE; Region: PLPDE_III_PvsE_like; cd06843 509169002664 dimer interface [polypeptide binding]; other site 509169002665 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 509169002666 active site 509169002667 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 509169002668 catalytic residues [active] 509169002669 substrate binding site [chemical binding]; other site 509169002670 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 509169002671 IucA / IucC family; Region: IucA_IucC; pfam04183 509169002672 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 509169002673 drug efflux system protein MdtG; Provisional; Region: PRK09874 509169002674 IucA / IucC family; Region: IucA_IucC; pfam04183 509169002675 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 509169002676 argininosuccinate lyase; Provisional; Region: PRK02186 509169002677 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 509169002678 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 509169002679 N-terminal plug; other site 509169002680 ligand-binding site [chemical binding]; other site 509169002681 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; cl09155 509169002682 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 509169002683 putative cation:proton antiport protein; Provisional; Region: PRK10669 509169002684 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 509169002685 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169002686 Cytochrome P450; Region: p450; cl12078 509169002687 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 509169002688 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 509169002689 N-terminal plug; other site 509169002690 ligand-binding site [chemical binding]; other site 509169002691 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 509169002692 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 509169002693 N-terminal plug; other site 509169002694 ligand-binding site [chemical binding]; other site 509169002695 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 509169002696 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 509169002697 active site 509169002698 metal binding site [ion binding]; metal-binding site 509169002699 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 509169002700 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 509169002701 N-terminal plug; other site 509169002702 ligand-binding site [chemical binding]; other site 509169002703 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 509169002704 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 facilitated...; Region: ABCF_EF-3; cd03221 509169002705 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169002706 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 facilitated...; Region: ABCF_EF-3; cd03221 509169002707 ABC transporter; Region: ABC_tran_2; pfam12848 509169002708 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 facilitated...; Region: ABCF_EF-3; cd03221 509169002709 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 509169002710 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169002711 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 509169002712 dimerization interface [polypeptide binding]; other site 509169002713 beta-lactamase TEM; Provisional; Region: PRK15442 509169002714 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 509169002715 manganese transport regulator MntR; Provisional; Region: PRK11050 509169002716 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 509169002717 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 509169002718 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 509169002719 Phosphoesterase family; Region: Phosphoesterase; cl15450 509169002720 Domain of unknown function (DUF756); Region: DUF756; pfam05506 509169002721 Domain of unknown function (DUF756); Region: DUF756; pfam05506 509169002722 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 509169002723 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169002724 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169002725 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 509169002726 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 509169002727 active site 509169002728 motif I; other site 509169002729 motif II; other site 509169002730 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 509169002731 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 509169002732 glucosylglycerol-phosphate synthase; Region: gluc_glyc_Psyn; TIGR02398 509169002733 active site 509169002734 homotetramer interface [polypeptide binding]; other site 509169002735 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169002736 putative substrate translocation pore; other site 509169002737 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 509169002738 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 509169002739 Protein of unknown function (DUF3011); Region: DUF3011; pfam11218 509169002740 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 509169002741 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 509169002742 dimer interface [polypeptide binding]; other site 509169002743 anticodon binding site; other site 509169002744 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 509169002745 homodimer interface [polypeptide binding]; other site 509169002746 motif 1; other site 509169002747 active site 509169002748 motif 2; other site 509169002749 GAD domain; Region: GAD; pfam02938 509169002750 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 509169002751 motif 3; other site 509169002752 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 509169002753 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 509169002754 Domain of unknown function DUF28; Region: DUF28; cl00361 509169002755 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 509169002756 active site 509169002757 putative DNA-binding cleft [nucleotide binding]; other site 509169002758 dimer interface [polypeptide binding]; other site 509169002759 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 509169002760 RuvA N terminal domain; Region: RuvA_N; pfam01330 509169002761 Amino acid permease; Region: AA_permease; cl00524 509169002762 SMI1 / KNR4 family; Region: SMI1_KNR4; cl01747 509169002763 SMI1 / KNR4 family; Region: SMI1_KNR4; cl01747 509169002764 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 509169002765 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 509169002766 Walker A motif; other site 509169002767 ATP binding site [chemical binding]; other site 509169002768 Walker B motif; other site 509169002769 arginine finger; other site 509169002770 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 509169002771 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 509169002772 active site 509169002773 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 509169002774 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 509169002775 TolA protein; Region: tolA_full; TIGR02794 509169002776 translocation protein TolB; Provisional; Region: tolB; PRK04922 509169002777 TolB amino-terminal domain; Region: TolB_N; cl00639 509169002778 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 509169002779 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 509169002780 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 509169002781 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 509169002782 ligand binding site [chemical binding]; other site 509169002783 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 509169002784 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 509169002785 binding surface 509169002786 TPR motif; other site 509169002787 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 509169002788 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 509169002789 FeS/SAM binding site; other site 509169002790 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 509169002791 Ligand Binding Site [chemical binding]; other site 509169002792 PAS fold; Region: PAS_4; pfam08448 509169002793 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 509169002794 putative active site [active] 509169002795 heme pocket [chemical binding]; other site 509169002796 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 509169002797 Histidine kinase; Region: HisKA_2; cl06527 509169002798 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 509169002799 active site 509169002800 phosphorylation site [posttranslational modification] 509169002801 intermolecular recognition site; other site 509169002802 Secretory lipase; Region: LIP; pfam03583 509169002803 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 509169002804 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 509169002805 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 509169002806 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 509169002807 Cl- selectivity filter; other site 509169002808 Cl- binding residues [ion binding]; other site 509169002809 pore gating glutamate residue; other site 509169002810 dimer interface [polypeptide binding]; other site 509169002811 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 509169002812 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 509169002813 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169002814 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 509169002815 dimerization interface [polypeptide binding]; other site 509169002816 LysE type translocator; Region: LysE; cl00565 509169002817 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 509169002818 Coenzyme A binding pocket [chemical binding]; other site 509169002819 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 509169002820 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 509169002821 RNA binding surface [nucleotide binding]; other site 509169002822 PSSA_1: Pseudouridine synthase, a subgroup of the RsuA family. This group is comprised of bacterial proteins assigned to the RsuA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PSSA_1; cd02555 509169002823 active site 509169002824 Response regulator receiver domain; Region: Response_reg; pfam00072 509169002825 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 509169002826 active site 509169002827 phosphorylation site [posttranslational modification] 509169002828 intermolecular recognition site; other site 509169002829 dimerization interface [polypeptide binding]; other site 509169002830 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 509169002831 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 509169002832 ATP binding site [chemical binding]; other site 509169002833 putative Mg++ binding site [ion binding]; other site 509169002834 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 509169002835 nucleotide binding region [chemical binding]; other site 509169002836 ATP-binding site [chemical binding]; other site 509169002837 RQC domain; Region: RQC; cl09632 509169002838 HRDC domain; Region: HRDC; cl02578 509169002839 Ferritin-like domain; Region: Ferritin; pfam00210 509169002840 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 509169002841 dimerization interface [polypeptide binding]; other site 509169002842 DPS ferroxidase diiron center [ion binding]; other site 509169002843 ion pore; other site 509169002844 DEAD-like helicases superfamily; Region: DEXDc; smart00487 509169002845 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 509169002846 ATP binding site [chemical binding]; other site 509169002847 putative Mg++ binding site [ion binding]; other site 509169002848 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 509169002849 nucleotide binding region [chemical binding]; other site 509169002850 ATP-binding site [chemical binding]; other site 509169002851 Helicase associated domain (HA2); Region: HA2; cl04503 509169002852 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 509169002853 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 509169002854 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 509169002855 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169002856 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 509169002857 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 509169002858 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 509169002859 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; cl01750 509169002860 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 509169002861 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 509169002862 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 509169002863 FeS/SAM binding site; other site 509169002864 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; TIGR04085 509169002865 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 509169002866 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 509169002867 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 509169002868 similar to Coenzyme PQQ biosynthesis protein A 509169002869 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 509169002870 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 509169002871 synthetase active site [active] 509169002872 NTP binding site [chemical binding]; other site 509169002873 metal binding site [ion binding]; metal-binding site 509169002874 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 509169002875 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 509169002876 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 509169002877 Probable Catalytic site; other site 509169002878 metal-binding site 509169002879 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 509169002880 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 509169002881 Transglycosylase; Region: Transgly; cl07896 509169002882 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 509169002883 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 509169002884 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169002885 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169002886 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 509169002887 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 509169002888 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 509169002889 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 509169002890 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 509169002891 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 509169002892 Gram-negative bacterial tonB protein; Region: TonB; cl10048 509169002893 glutathione synthetase; Provisional; Region: PRK05246 509169002894 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 509169002895 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 509169002896 Response regulator receiver domain; Region: Response_reg; pfam00072 509169002897 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 509169002898 active site 509169002899 phosphorylation site [posttranslational modification] 509169002900 intermolecular recognition site; other site 509169002901 dimerization interface [polypeptide binding]; other site 509169002902 Response regulator receiver domain; Region: Response_reg; pfam00072 509169002903 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 509169002904 active site 509169002905 phosphorylation site [posttranslational modification] 509169002906 intermolecular recognition site; other site 509169002907 dimerization interface [polypeptide binding]; other site 509169002908 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 509169002909 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 509169002910 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 transmembrane...; Region: TarH; cl00144 509169002911 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 509169002912 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 509169002913 putative binding surface; other site 509169002914 active site 509169002915 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 509169002916 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 509169002917 ATP binding site [chemical binding]; other site 509169002918 Mg2+ binding site [ion binding]; other site 509169002919 G-X-G motif; other site 509169002920 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 509169002921 Response regulator receiver domain; Region: Response_reg; pfam00072 509169002922 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 509169002923 active site 509169002924 phosphorylation site [posttranslational modification] 509169002925 intermolecular recognition site; other site 509169002926 dimerization interface [polypeptide binding]; other site 509169002927 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 509169002928 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 509169002931 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14951 509169002932 RNA polymerase sigma factor; Provisional; Region: PRK12513 509169002933 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 509169002934 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 509169002935 DNA binding residues [nucleotide binding] 509169002936 von Willebrand factor; Region: vWF_A; pfam12450 509169002937 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 509169002938 VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subgroup; cd01465 509169002939 metal ion-dependent adhesion site (MIDAS); other site 509169002940 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 509169002941 Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked glycoproteins. This enzyme is an amidase located inside lysosomes. Mutation of this gene in humans causes a genetic disorder known as aspartylglycosaminuria (AGU)...; Region: Glycosylasparaginase; cd04513 509169002942 active site 509169002943 dimer interface [polypeptide binding]; other site 509169002944 catalytic nucleophile [active] 509169002945 CutC family; Region: CutC; cl01218 509169002946 Cytochrome P450; Region: p450; cl12078 509169002947 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 509169002948 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 509169002949 Asp-box motif; other site 509169002950 catalytic site [active] 509169002951 Killing trait; Region: RebB; pfam11747 509169002952 Protein of unknown function DUF45; Region: DUF45; cl00636 509169002953 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 509169002954 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 509169002955 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 509169002956 ATP binding site [chemical binding]; other site 509169002957 putative Mg++ binding site [ion binding]; other site 509169002958 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 509169002959 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 509169002960 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 509169002961 BRO family, N-terminal domain; Region: Bro-N; cl10591 509169002962 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 509169002963 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 509169002964 HsdM N-terminal domain; Region: HsdM_N; pfam12161 509169002965 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 509169002966 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 509169002967 Ulp1 protease family, C-terminal catalytic domain; Region: Peptidase_C48; pfam02902 509169002968 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 509169002969 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 509169002970 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 509169002971 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 509169002972 Protein of unknown function (DUF1237); Region: DUF1237; cl15402 509169002973 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 509169002974 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 509169002975 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 509169002976 PA14 domain; Region: PA14; cl08459 509169002977 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 509169002978 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 509169002979 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 509169002980 domain; Region: Glyco_hydro_2; pfam00703 509169002981 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 509169002982 active site 509169002983 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 509169002984 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 509169002985 active site 509169002986 Glyco_18 domain; Region: Glyco_18; smart00636 509169002987 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 509169002988 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 509169002989 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 509169002990 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169002991 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 509169002992 ligand-binding site [chemical binding]; other site 509169002993 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 509169002994 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 509169002995 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK08742 509169002996 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 509169002997 inhibitor-cofactor binding pocket; inhibition site 509169002998 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169002999 catalytic residue [active] 509169003000 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 509169003001 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 509169003002 dimer interface [polypeptide binding]; other site 509169003003 ADP-ribose binding site [chemical binding]; other site 509169003004 active site 509169003005 nudix motif; other site 509169003006 metal binding site [ion binding]; metal-binding site 509169003007 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 509169003008 active site 509169003009 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 509169003010 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 509169003011 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 509169003012 Uncharacterised BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 509169003013 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 509169003014 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 509169003015 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 509169003016 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 509169003017 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 509169003018 lipoyl attachment site [posttranslational modification]; other site 509169003019 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 509169003020 TLC ATP/ADP transporter; Region: TLC; cl03940 509169003021 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 509169003022 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 509169003023 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 509169003024 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 509169003025 active site 509169003026 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 509169003027 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 509169003028 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 509169003029 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169003030 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 509169003031 N-terminal plug; other site 509169003032 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 509169003033 ligand-binding site [chemical binding]; other site 509169003034 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 509169003035 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 509169003036 dimerization interface [polypeptide binding]; other site 509169003037 domain crossover interface; other site 509169003038 redox-dependent activation switch; other site 509169003039 Transglycosylase; Region: Transgly; cl07896 509169003040 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 509169003041 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 509169003042 Ligand binding site; other site 509169003043 Putative Catalytic site; other site 509169003044 DXD motif; other site 509169003045 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 509169003046 FOG: CBS domain [General function prediction only]; Region: COG0517 509169003047 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 509169003048 Haemolysin-III related; Region: HlyIII; cl03831 509169003049 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 509169003050 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 509169003051 G1 box; other site 509169003052 putative GEF interaction site [polypeptide binding]; other site 509169003053 GTP/Mg2+ binding site [chemical binding]; other site 509169003054 Switch I region; other site 509169003055 G2 box; other site 509169003056 G3 box; other site 509169003057 Switch II region; other site 509169003058 G4 box; other site 509169003059 G5 box; other site 509169003060 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 509169003061 Peptidase family M23; Region: Peptidase_M23; pfam01551 509169003062 homoserine O-acetyltransferase; Provisional; Region: PRK08775 509169003063 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 509169003064 cystathionine gamma-synthase; Provisional; Region: PRK08776 509169003065 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 509169003066 homodimer interface [polypeptide binding]; other site 509169003067 substrate-cofactor binding pocket; other site 509169003068 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169003069 catalytic residue [active] 509169003070 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 509169003071 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169003072 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 509169003073 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 509169003074 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 509169003075 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 509169003076 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 509169003077 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 509169003078 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 509169003079 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 509169003080 catalytic residues [active] 509169003081 YceI-like domain; Region: YceI; cl01001 509169003082 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 509169003083 YceI-like domain; Region: YceI; cl01001 509169003084 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 509169003085 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 509169003086 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169003087 dimer interface [polypeptide binding]; other site 509169003088 phosphorylation site [posttranslational modification] 509169003089 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 509169003090 ATP binding site [chemical binding]; other site 509169003091 Mg2+ binding site [ion binding]; other site 509169003092 G-X-G motif; other site 509169003093 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 509169003094 active site 509169003095 phosphorylation site [posttranslational modification] 509169003096 intermolecular recognition site; other site 509169003097 dimerization interface [polypeptide binding]; other site 509169003098 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 509169003099 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 509169003100 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169003101 dimer interface [polypeptide binding]; other site 509169003102 phosphorylation site [posttranslational modification] 509169003103 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 509169003104 ATP binding site [chemical binding]; other site 509169003105 Mg2+ binding site [ion binding]; other site 509169003106 G-X-G motif; other site 509169003107 Response regulator receiver domain; Region: Response_reg; pfam00072 509169003108 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 509169003109 active site 509169003110 phosphorylation site [posttranslational modification] 509169003111 intermolecular recognition site; other site 509169003112 dimerization interface [polypeptide binding]; other site 509169003113 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 509169003114 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 509169003115 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169003116 dimer interface [polypeptide binding]; other site 509169003117 phosphorylation site [posttranslational modification] 509169003118 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 509169003119 ATP binding site [chemical binding]; other site 509169003120 Mg2+ binding site [ion binding]; other site 509169003121 G-X-G motif; other site 509169003122 Response regulator receiver domain; Region: Response_reg; pfam00072 509169003123 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 509169003124 active site 509169003125 phosphorylation site [posttranslational modification] 509169003126 intermolecular recognition site; other site 509169003127 dimerization interface [polypeptide binding]; other site 509169003128 putative transporter; Provisional; Region: PRK10504 509169003129 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169003130 putative substrate translocation pore; other site 509169003131 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169003132 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 509169003133 substrate binding site [chemical binding]; other site 509169003134 active site 509169003135 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 509169003136 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 509169003137 active site 509169003138 dimer interface [polypeptide binding]; other site 509169003139 metal binding site [ion binding]; metal-binding site 509169003140 shikimate kinase; Reviewed; Region: aroK; PRK00131 509169003141 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 509169003142 ADP binding site [chemical binding]; other site 509169003143 magnesium binding site [ion binding]; other site 509169003144 putative shikimate binding site; other site 509169003145 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 509169003146 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 509169003147 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 509169003148 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; cl01551 509169003149 PspA/IM30 family; Region: PspA_IM30; pfam04012 509169003150 Ion channel; Region: Ion_trans_2; cl11596 509169003151 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 509169003152 Predicted membrane protein [Function unknown]; Region: COG3766 509169003153 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 509169003154 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 509169003155 Protein of unknown function (DUF1190); Region: DUF1190; cl10031 509169003156 Glutathionylspermidine synthase; Region: GSP_synth; cl00503 509169003157 Major Facilitator Superfamily; Region: MFS_1; pfam07690 509169003158 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 509169003159 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 509169003160 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 509169003161 DNA binding residues [nucleotide binding] 509169003162 dimer interface [polypeptide binding]; other site 509169003163 [2Fe-2S] cluster binding site [ion binding]; other site 509169003164 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 509169003165 Zn binding site [ion binding]; other site 509169003166 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169003167 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169003168 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169003169 SapC; Region: SapC; pfam07277 509169003170 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169003171 CheB methylesterase; Region: CheB_methylest; pfam01339 509169003172 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 509169003173 Amino acid permease; Region: AA_permease; cl00524 509169003174 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 509169003175 Autoinducer binding domain; Region: Autoind_bind; pfam03472 509169003176 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 509169003177 DNA binding residues [nucleotide binding] 509169003178 dimerization interface [polypeptide binding]; other site 509169003179 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 509169003180 Pectate lyase; Region: Pec_lyase_C; cl01593 509169003181 Amino acid permease; Region: AA_permease; cl00524 509169003182 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 509169003183 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 509169003184 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 509169003185 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 509169003186 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 509169003187 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 509169003188 MgtE intracellular N domain; Region: MgtE_N; cl15244 509169003189 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 509169003190 Divalent cation transporter; Region: MgtE; cl00786 509169003191 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 509169003192 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 509169003193 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 509169003194 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; cl09155 509169003195 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 509169003196 dimerization domain swap beta strand [polypeptide binding]; other site 509169003197 regulatory protein interface [polypeptide binding]; other site 509169003198 active site 509169003199 regulatory phosphorylation site [posttranslational modification]; other site 509169003200 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 509169003201 active pocket/dimerization site; other site 509169003202 active site 509169003203 phosphorylation site [posttranslational modification] 509169003204 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 509169003205 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169003206 HPr kinase/phosphorylase; Provisional; Region: PRK05428 509169003207 DRTGG domain; Region: DRTGG; cl12147 509169003208 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 509169003209 Hpr binding site; other site 509169003210 active site 509169003211 homohexamer subunit interaction site [polypeptide binding]; other site 509169003212 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 509169003213 active site 509169003214 phosphorylation site [posttranslational modification] 509169003215 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 509169003216 30S subunit binding site; other site 509169003217 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 509169003218 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 509169003219 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 509169003220 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 509169003221 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 509169003222 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 509169003223 Walker A/P-loop; other site 509169003224 ATP binding site [chemical binding]; other site 509169003225 Q-loop/lid; other site 509169003226 ABC transporter signature motif; other site 509169003227 Walker B; other site 509169003228 D-loop; other site 509169003229 H-loop/switch region; other site 509169003230 OstA-like protein; Region: OstA; cl00844 509169003231 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 509169003232 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 509169003233 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 509169003234 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 509169003235 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 509169003236 putative active site [active] 509169003237 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 509169003238 BolA-like protein; Region: BolA; cl00386 509169003239 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 509169003240 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 509169003241 hinge; other site 509169003242 active site 509169003243 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 509169003244 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 509169003245 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 509169003246 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 509169003247 active site 509169003248 substrate binding site [chemical binding]; other site 509169003249 cosubstrate binding site; other site 509169003250 catalytic site [active] 509169003251 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 509169003252 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 509169003253 dimerization interface [polypeptide binding]; other site 509169003254 putative ATP binding site [chemical binding]; other site 509169003255 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3249 509169003256 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 509169003257 Domain of unknown function DUF20; Region: UPF0118; cl00465 509169003258 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169003259 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 509169003260 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 509169003261 Substrate binding site; other site 509169003262 metal-binding site 509169003263 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 509169003264 Phosphotransferase enzyme family; Region: APH; pfam01636 509169003265 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 509169003266 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 509169003267 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 509169003268 metal binding site [ion binding]; metal-binding site 509169003269 putative dimer interface [polypeptide binding]; other site 509169003270 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 509169003271 HutD; Region: HutD; cl01532 509169003272 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 509169003273 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 509169003274 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_like1; cd06200 509169003275 FAD binding pocket [chemical binding]; other site 509169003276 FAD binding motif [chemical binding]; other site 509169003277 catalytic residues [active] 509169003278 NAD binding pocket [chemical binding]; other site 509169003279 phosphate binding motif [ion binding]; other site 509169003280 beta-alpha-beta structure motif; other site 509169003281 ApbE family; Region: ApbE; cl00643 509169003282 Nickel uptake substrate-specific transmembrane region; Region: NikM; pfam10670 509169003283 Predicted periplasmic protein (DUF2271); Region: DUF2271; cl01469 509169003284 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 509169003285 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 509169003286 Sel1 repeat; Region: Sel1; cl02723 509169003287 Sel1 repeat; Region: Sel1; cl02723 509169003288 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 509169003289 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 509169003290 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 509169003291 N-terminal plug; other site 509169003292 ligand-binding site [chemical binding]; other site 509169003293 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 509169003294 [2Fe-2S] cluster binding site [ion binding]; other site 509169003295 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 509169003296 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 509169003297 Coenzyme A binding pocket [chemical binding]; other site 509169003298 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 509169003299 Aminotransferase class-V; Region: Aminotran_5; pfam00266 509169003300 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 509169003301 catalytic residue [active] 509169003302 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 509169003303 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 509169003304 FeS assembly ATPase SufC; Region: sufC; TIGR01978 509169003305 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 509169003306 Walker A/P-loop; other site 509169003307 ATP binding site [chemical binding]; other site 509169003308 Q-loop/lid; other site 509169003309 ABC transporter signature motif; other site 509169003310 Walker B; other site 509169003311 D-loop; other site 509169003312 H-loop/switch region; other site 509169003313 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 509169003314 putative ABC transporter; Region: ycf24; CHL00085 509169003315 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 509169003316 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169003317 SET domain; Region: SET; cl02566 509169003318 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 509169003319 proposed catalytic triad [active] 509169003320 conserved cys residue [active] 509169003321 Domain of Unknown Function with PDB structure; Region: DUF3861; pfam12977 509169003322 Peptidase family M23; Region: Peptidase_M23; pfam01551 509169003323 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 509169003324 IHF dimer interface [polypeptide binding]; other site 509169003325 IHF - DNA interface [nucleotide binding]; other site 509169003326 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169003327 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 509169003328 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 509169003329 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 509169003330 catalytic residue [active] 509169003331 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 509169003332 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 509169003333 Walker A motif; other site 509169003334 ATP binding site [chemical binding]; other site 509169003335 Walker B motif; other site 509169003336 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 509169003337 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 509169003338 Walker A motif; other site 509169003339 ATP binding site [chemical binding]; other site 509169003340 Walker B motif; other site 509169003341 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 509169003342 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 509169003343 Protein of unknown function DUF72; Region: DUF72; cl00777 509169003344 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 509169003345 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 509169003346 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; cl00243 509169003347 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 509169003348 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 509169003349 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169003350 OsmC-like protein; Region: OsmC; cl00767 509169003351 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 509169003352 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 509169003353 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 509169003354 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 509169003355 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 509169003356 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 509169003357 bifunctional aspartate kinase/diaminopimelate decarboxylase protein; Provisional; Region: PRK08961 509169003358 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 509169003359 nucleotide binding site [chemical binding]; other site 509169003360 substrate binding site [chemical binding]; other site 509169003361 ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC) bacterial protein; Region: ACT_AKiii-DAPDC_1; cd04935 509169003362 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 509169003363 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 509169003364 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 509169003365 catalytic residue [active] 509169003366 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK04690 509169003367 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 509169003368 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 509169003369 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 509169003370 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 509169003371 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 509169003372 substrate binding pocket [chemical binding]; other site 509169003373 chain length determination region; other site 509169003374 substrate-Mg2+ binding site; other site 509169003375 catalytic residues [active] 509169003376 aspartate-rich region 1; other site 509169003377 active site lid residues [active] 509169003378 aspartate-rich region 2; other site 509169003379 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 509169003380 dimer interface [polypeptide binding]; other site 509169003381 ssDNA binding site [nucleotide binding]; other site 509169003382 tetramer (dimer of dimers) interface [polypeptide binding]; other site 509169003383 MltA-interacting protein MipA; Region: MipA; cl01504 509169003384 Cupin domain; Region: Cupin_2; cl09118 509169003385 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 509169003386 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 509169003387 active site 509169003388 phosphorylation site [posttranslational modification] 509169003389 intermolecular recognition site; other site 509169003390 dimerization interface [polypeptide binding]; other site 509169003391 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 509169003392 DNA binding site [nucleotide binding] 509169003393 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 509169003394 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169003395 dimer interface [polypeptide binding]; other site 509169003396 phosphorylation site [posttranslational modification] 509169003397 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 509169003398 ATP binding site [chemical binding]; other site 509169003399 Mg2+ binding site [ion binding]; other site 509169003400 G-X-G motif; other site 509169003401 Cache domain; Region: Cache_1; pfam02743 509169003402 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169003403 metal binding site [ion binding]; metal-binding site 509169003404 active site 509169003405 I-site; other site 509169003406 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 509169003407 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 509169003408 putative NAD(P) binding site [chemical binding]; other site 509169003409 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 509169003410 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 509169003411 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 509169003412 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 509169003413 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 509169003414 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 509169003415 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 509169003416 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 509169003417 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 509169003418 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 509169003419 metal-binding site 509169003420 Protein of unknown function (DUF819); Region: DUF819; cl02317 509169003421 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 509169003422 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 509169003423 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 509169003424 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 509169003425 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 509169003426 motif II; other site 509169003427 Protein of unknown function (DUF466); Region: DUF466; cl01082 509169003428 Carbon starvation protein CstA; Region: CstA; cl00856 509169003429 Pirin-related protein [General function prediction only]; Region: COG1741 509169003430 Cupin domain; Region: Cupin_2; cl09118 509169003431 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 509169003432 OsmC-like protein; Region: OsmC; cl00767 509169003433 Pirin-related protein [General function prediction only]; Region: COG1741 509169003434 Cupin domain; Region: Cupin_2; cl09118 509169003435 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 509169003436 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 509169003437 Active_site [active] 509169003438 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 509169003439 catalytic core [active] 509169003440 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 509169003441 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 509169003442 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 509169003443 active site 509169003444 Zn binding site [ion binding]; other site 509169003445 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 509169003446 putative active site [active] 509169003447 catalytic site [active] 509169003448 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 509169003449 putative active site [active] 509169003450 catalytic site [active] 509169003451 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 509169003452 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 509169003453 active site 509169003454 phosphorylation site [posttranslational modification] 509169003455 intermolecular recognition site; other site 509169003456 dimerization interface [polypeptide binding]; other site 509169003457 CheB methylesterase; Region: CheB_methylest; pfam01339 509169003458 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 509169003459 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 509169003460 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 509169003461 S-adenosylmethionine binding site [chemical binding]; other site 509169003462 Response regulator receiver domain; Region: Response_reg; pfam00072 509169003463 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 509169003464 active site 509169003465 phosphorylation site [posttranslational modification] 509169003466 intermolecular recognition site; other site 509169003467 dimerization interface [polypeptide binding]; other site 509169003468 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 509169003469 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 509169003470 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 509169003471 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 509169003472 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 transmembrane...; Region: TarH; cl00144 509169003473 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 509169003474 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 509169003475 putative binding surface; other site 509169003476 active site 509169003477 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 509169003478 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 509169003479 ATP binding site [chemical binding]; other site 509169003480 Mg2+ binding site [ion binding]; other site 509169003481 G-X-G motif; other site 509169003482 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 509169003483 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 509169003484 anti sigma factor interaction site; other site 509169003485 regulatory phosphorylation site [posttranslational modification]; other site 509169003486 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 509169003487 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 509169003488 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 509169003489 ATP binding site [chemical binding]; other site 509169003490 putative Mg++ binding site [ion binding]; other site 509169003491 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 509169003492 nucleotide binding region [chemical binding]; other site 509169003493 ATP-binding site [chemical binding]; other site 509169003494 TRCF domain; Region: TRCF; cl04088 509169003495 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 509169003496 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 509169003497 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 509169003498 DNA-binding response regulator CreB; Provisional; Region: PRK11083 509169003499 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 509169003500 active site 509169003501 phosphorylation site [posttranslational modification] 509169003502 intermolecular recognition site; other site 509169003503 dimerization interface [polypeptide binding]; other site 509169003504 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 509169003505 DNA binding site [nucleotide binding] 509169003506 sensory histidine kinase CreC; Provisional; Region: PRK11100 509169003507 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 509169003508 dimerization interface [polypeptide binding]; other site 509169003509 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169003510 dimer interface [polypeptide binding]; other site 509169003511 phosphorylation site [posttranslational modification] 509169003512 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 509169003513 ATP binding site [chemical binding]; other site 509169003514 Mg2+ binding site [ion binding]; other site 509169003515 G-X-G motif; other site 509169003516 Inner membrane protein CreD; Region: CreD; cl01844 509169003517 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 509169003518 Coenzyme A binding pocket [chemical binding]; other site 509169003519 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 509169003520 putative active site [active] 509169003521 catalytic triad [active] 509169003522 putative dimer interface [polypeptide binding]; other site 509169003523 Protein of unknown function (DUF3616); Region: DUF3616; pfam12275 509169003524 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 509169003525 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 509169003526 active site 509169003527 HIGH motif; other site 509169003528 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 509169003529 active site 509169003530 KMSKS motif; other site 509169003531 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 509169003532 metal binding site 2 [ion binding]; metal-binding site 509169003533 putative DNA binding helix; other site 509169003534 metal binding site 1 [ion binding]; metal-binding site 509169003535 dimer interface [polypeptide binding]; other site 509169003536 structural Zn2+ binding site [ion binding]; other site 509169003537 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 509169003538 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169003539 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 509169003540 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 509169003541 Protein export membrane protein; Region: SecD_SecF; cl14618 509169003542 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 509169003543 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 509169003544 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169003545 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 509169003546 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 509169003547 active site 509169003548 catalytic tetrad [active] 509169003549 Transcriptional regulator [Transcription]; Region: LysR; COG0583 509169003550 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169003551 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 509169003552 putative effector binding pocket; other site 509169003553 putative dimerization interface [polypeptide binding]; other site 509169003554 Cupin domain; Region: Cupin_2; cl09118 509169003555 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 509169003556 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 509169003557 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 509169003558 LysR family transcriptional regulator; Provisional; Region: PRK14997 509169003559 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169003560 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 509169003561 putative effector binding pocket; other site 509169003562 dimerization interface [polypeptide binding]; other site 509169003563 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169003564 putative substrate translocation pore; other site 509169003565 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cl00470 509169003566 catalytic tetrad [active] 509169003567 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cl00470 509169003568 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 509169003569 catalytic residues [active] 509169003570 Peptidase S8 family domain in Protein convertases; Region: Peptidases_S8_Protein_convertases_Kexins_Furin-lik; cd04059 509169003571 calcium binding site 1 [ion binding]; other site 509169003572 active site 509169003573 catalytic triad [active] 509169003574 calcium binding site 2 [ion binding]; other site 509169003575 calcium binding site 3 [ion binding]; other site 509169003576 type VII secretion-associated serine protease mycosin; Region: T7SS_mycosin; TIGR03921 509169003577 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 509169003578 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 509169003579 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 509169003580 N-terminal plug; other site 509169003581 ligand-binding site [chemical binding]; other site 509169003582 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 509169003583 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 509169003584 4Fe-4S binding domain; Region: Fer4; cl02805 509169003585 4Fe-4S binding domain; Region: Fer4; cl02805 509169003586 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 509169003587 [4Fe-4S] binding site [ion binding]; other site 509169003588 molybdopterin cofactor binding site; other site 509169003589 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 509169003590 molybdopterin cofactor binding site; other site 509169003591 Protein of unknown function (DUF1641); Region: DUF1641; cl01025 509169003592 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 509169003593 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 509169003594 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 509169003595 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 509169003596 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169003597 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 509169003598 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 509169003599 N-terminal plug; other site 509169003600 ligand-binding site [chemical binding]; other site 509169003601 MerC mercury resistance protein; Region: MerC; cl03934 509169003602 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 509169003603 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 509169003604 putative ion selectivity filter; other site 509169003605 putative pore gating glutamate residue; other site 509169003606 putative H+/Cl- coupling transport residue; other site 509169003607 Sulfatase; Region: Sulfatase; cl10460 509169003608 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 509169003609 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 509169003610 DNA binding site [nucleotide binding] 509169003611 active site 509169003612 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 509169003613 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 509169003614 AlkA N-terminal domain; Region: AlkA_N; cl05528 509169003615 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 509169003616 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 509169003617 minor groove reading motif; other site 509169003618 helix-hairpin-helix signature motif; other site 509169003619 substrate binding pocket [chemical binding]; other site 509169003620 active site 509169003621 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 509169003622 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; cl14780 509169003623 MAPEG family; Region: MAPEG; cl09190 509169003624 hypothetical protein; Provisional; Region: PRK09126 509169003625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169003626 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 509169003627 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 509169003628 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 509169003629 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 509169003630 ATP binding site [chemical binding]; other site 509169003631 Mg++ binding site [ion binding]; other site 509169003632 motif III; other site 509169003633 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 509169003634 nucleotide binding region [chemical binding]; other site 509169003635 ATP-binding site [chemical binding]; other site 509169003636 DbpA RNA binding domain; Region: DbpA; pfam03880 509169003637 PAS domain S-box; Region: sensory_box; TIGR00229 509169003638 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 509169003639 putative active site [active] 509169003640 heme pocket [chemical binding]; other site 509169003641 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169003642 metal binding site [ion binding]; metal-binding site 509169003643 active site 509169003644 I-site; other site 509169003645 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 509169003646 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 509169003647 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 509169003648 PseudoU_synth_RluF_like: Pseudouridine synthase, Escherichia coli RluF like. This group is comprised of bacterial proteins similar to Escherichia coli RluF. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluF; cd02554 509169003649 probable active site [active] 509169003650 EamA-like transporter family; Region: EamA; cl01037 509169003651 EamA-like transporter family; Region: EamA; cl01037 509169003652 Protein of unknown function DUF72; Region: DUF72; cl00777 509169003653 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 509169003654 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 509169003655 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 509169003656 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 509169003657 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 509169003658 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 509169003659 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 509169003660 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 509169003661 Walker A/P-loop; other site 509169003662 ATP binding site [chemical binding]; other site 509169003663 Q-loop/lid; other site 509169003664 ABC transporter signature motif; other site 509169003665 Walker B; other site 509169003666 D-loop; other site 509169003667 H-loop/switch region; other site 509169003668 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 509169003669 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 509169003670 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 509169003671 dimerization interface [polypeptide binding]; other site 509169003672 putative DNA binding site [nucleotide binding]; other site 509169003673 putative Zn2+ binding site [ion binding]; other site 509169003674 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 509169003675 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169003676 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 509169003677 dimerization interface [polypeptide binding]; other site 509169003678 substrate binding pocket [chemical binding]; other site 509169003679 EamA-like transporter family; Region: EamA; cl01037 509169003680 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 509169003681 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 509169003682 active site 509169003683 Domain of unknown function (DUF378); Region: DUF378; cl00943 509169003684 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 509169003685 CoenzymeA binding site [chemical binding]; other site 509169003686 subunit interaction site [polypeptide binding]; other site 509169003687 PHB binding site; other site 509169003688 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 509169003689 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 509169003690 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 509169003691 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 509169003692 HIGH motif; other site 509169003693 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 509169003694 active site 509169003695 KMSKS motif; other site 509169003696 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 509169003697 tRNA binding surface [nucleotide binding]; other site 509169003698 Lipopolysaccharide-assembly; Region: LptE; cl01125 509169003699 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 509169003700 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 509169003701 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 509169003702 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 509169003703 active site 509169003704 (T/H)XGH motif; other site 509169003705 Domain of unknown function DUF143; Region: DUF143; cl00519 509169003706 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 509169003707 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 509169003708 transport protein TonB; Provisional; Region: PRK10819 509169003709 Gram-negative bacterial tonB protein; Region: TonB; cl10048 509169003710 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169003711 Protein of unknown function (DUF541); Region: SIMPL; cl01077 509169003712 Maf-like protein; Region: Maf; pfam02545 509169003713 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 509169003714 active site 509169003715 dimer interface [polypeptide binding]; other site 509169003716 ribonuclease G; Provisional; Region: PRK11712 509169003717 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 509169003718 homodimer interface [polypeptide binding]; other site 509169003719 oligonucleotide binding site [chemical binding]; other site 509169003720 TIGR02099 family protein; Region: TIGR02099 509169003721 hypothetical protein; Provisional; Region: PRK10899 509169003722 hypothetical protein; Provisional; Region: PRK10899 509169003723 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 509169003724 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 509169003725 Protein of unknown function (DUF615); Region: DUF615; cl01147 509169003726 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 509169003727 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 509169003728 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 509169003729 Peptidase M35 domain of peptidyl-Lys metalloendopeptidases; Region: M35_peptidyl-Lys; cd11306 509169003730 active site 509169003731 Zn binding site [ion binding]; other site 509169003732 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 509169003733 substrate binding pocket [chemical binding]; other site 509169003734 chain length determination region; other site 509169003735 substrate-Mg2+ binding site; other site 509169003736 catalytic residues [active] 509169003737 aspartate-rich region 1; other site 509169003738 active site lid residues [active] 509169003739 aspartate-rich region 2; other site 509169003740 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 509169003741 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 509169003742 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 509169003743 Ligand Binding Site [chemical binding]; other site 509169003744 TilS substrate binding domain; Region: TilS; pfam09179 509169003745 B3/4 domain; Region: B3_4; cl11458 509169003746 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 509169003747 Alkaline phosphatase homologues; Region: alkPPc; smart00098 509169003748 active site 509169003749 dimer interface [polypeptide binding]; other site 509169003750 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 509169003751 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 509169003752 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 509169003753 S-adenosylmethionine binding site [chemical binding]; other site 509169003754 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 509169003755 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 509169003756 dimerization interface [polypeptide binding]; other site 509169003757 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169003758 phosphorylation site [posttranslational modification] 509169003759 dimer interface [polypeptide binding]; other site 509169003760 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 509169003761 ATP binding site [chemical binding]; other site 509169003762 Mg2+ binding site [ion binding]; other site 509169003763 G-X-G motif; other site 509169003764 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 509169003765 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 509169003766 active site 509169003767 phosphorylation site [posttranslational modification] 509169003768 intermolecular recognition site; other site 509169003769 dimerization interface [polypeptide binding]; other site 509169003770 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 509169003771 Walker A motif; other site 509169003772 ATP binding site [chemical binding]; other site 509169003773 Walker B motif; other site 509169003774 arginine finger; other site 509169003775 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169003776 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 509169003777 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 509169003778 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 509169003779 putative metal binding residues [ion binding]; other site 509169003780 signature motif; other site 509169003781 dimer interface [polypeptide binding]; other site 509169003782 polyP binding site; other site 509169003783 active site 509169003784 substrate binding site [chemical binding]; other site 509169003785 acceptor-phosphate pocket; other site 509169003786 NlpC/P60 family; Region: NLPC_P60; cl11438 509169003787 NlpC/P60 family; Region: NLPC_P60; cl11438 509169003788 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 509169003789 Predicted membrane protein [Function unknown]; Region: COG2311 509169003790 Protein of unknown function (DUF418); Region: DUF418; cl12135 509169003791 Protein of unknown function (DUF418); Region: DUF418; cl12135 509169003792 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 509169003793 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169003794 glutathione reductase; Validated; Region: PRK06116 509169003795 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169003796 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 509169003797 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 509169003798 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 509169003799 DNA binding site [nucleotide binding] 509169003800 active site 509169003801 Rhomboid family; Region: Rhomboid; cl11446 509169003802 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 509169003803 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 509169003804 active site 509169003805 Zn binding site [ion binding]; other site 509169003806 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 509169003807 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 509169003808 active site 509169003809 Zn binding site [ion binding]; other site 509169003810 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 509169003811 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 509169003812 active site 509169003813 Zn binding site [ion binding]; other site 509169003814 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 509169003815 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169003816 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169003817 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169003818 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 509169003819 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 509169003820 trimer interface [polypeptide binding]; other site 509169003821 active site 509169003822 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 509169003823 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 509169003824 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 509169003825 Fic/DOC family; Region: Fic; cl00960 509169003826 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 509169003827 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 509169003828 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 509169003829 FeS/SAM binding site; other site 509169003830 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 509169003831 domain; Region: GreA_GreB_N; pfam03449 509169003832 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 509169003833 Rhomboid family; Region: Rhomboid; cl11446 509169003834 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 509169003835 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 509169003836 dimer interface [polypeptide binding]; other site 509169003837 ADP-ribose binding site [chemical binding]; other site 509169003838 active site 509169003839 nudix motif; other site 509169003840 metal binding site [ion binding]; metal-binding site 509169003841 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 509169003842 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 509169003843 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 509169003844 N-acetyl-D-glucosamine binding site [chemical binding]; other site 509169003845 catalytic residue [active] 509169003846 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 509169003847 putative peptidoglycan binding site; other site 509169003848 Protein of unknown function (DUF3251); Region: DUF3251; cl08186 509169003849 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 509169003850 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 509169003851 Cu(I) binding site [ion binding]; other site 509169003852 HemK family putative methylases; Region: hemK_fam; TIGR00536 509169003853 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 509169003854 S-adenosylmethionine binding site [chemical binding]; other site 509169003855 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 509169003856 Tetramer interface [polypeptide binding]; other site 509169003857 active site 509169003858 FMN-binding site [chemical binding]; other site 509169003859 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 509169003860 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169003861 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 509169003862 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169003863 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 509169003864 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 509169003865 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 509169003866 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 509169003867 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 509169003868 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 509169003869 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 509169003870 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 509169003871 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 509169003872 dimerization interface 3.5A [polypeptide binding]; other site 509169003873 active site 509169003874 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 509169003875 active site 509169003876 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169003877 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 509169003878 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 509169003879 dimerization interface [polypeptide binding]; other site 509169003880 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 509169003881 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 509169003882 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169003883 catalytic residue [active] 509169003884 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 509169003885 substrate binding site [chemical binding]; other site 509169003886 active site 509169003887 catalytic residues [active] 509169003888 heterodimer interface [polypeptide binding]; other site 509169003889 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 509169003890 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 509169003891 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 509169003892 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 509169003893 active site 509169003894 substrate binding site [chemical binding]; other site 509169003895 metal binding site [ion binding]; metal-binding site 509169003896 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 509169003897 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 509169003898 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 509169003899 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 509169003900 dimerization interface [polypeptide binding]; other site 509169003901 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169003902 metal binding site [ion binding]; metal-binding site 509169003903 active site 509169003904 I-site; other site 509169003905 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 509169003906 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 509169003907 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 509169003908 apolar tunnel; other site 509169003909 heme binding site [chemical binding]; other site 509169003910 dimerization interface [polypeptide binding]; other site 509169003911 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 509169003912 classical (c) SDRs; Region: SDR_c; cd05233 509169003913 NAD(P) binding site [chemical binding]; other site 509169003914 active site 509169003915 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 509169003916 substrate binding site [chemical binding]; other site 509169003917 dimer interface [polypeptide binding]; other site 509169003918 catalytic triad [active] 509169003919 Preprotein translocase SecG subunit; Region: SecG; cl09123 509169003920 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 509169003921 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 509169003922 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl00539 509169003923 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; cl00417 509169003924 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 509169003925 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 509169003926 putative dimer interface [polypeptide binding]; other site 509169003927 [2Fe-2S] cluster binding site [ion binding]; other site 509169003928 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 509169003929 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 509169003930 SLBB domain; Region: SLBB; pfam10531 509169003931 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 509169003932 NADH dehydrogenase subunit G; Validated; Region: PRK09129 509169003933 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 509169003934 catalytic loop [active] 509169003935 iron binding site [ion binding]; other site 509169003936 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 509169003937 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 509169003938 molybdopterin cofactor binding site; other site 509169003939 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 509169003940 NADH dehydrogenase; Region: NADHdh; cl00469 509169003941 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 509169003942 4Fe-4S binding domain; Region: Fer4; cl02805 509169003943 4Fe-4S binding domain; Region: Fer4; cl02805 509169003944 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 509169003945 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 509169003946 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 509169003947 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 509169003948 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 509169003949 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 509169003950 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 509169003951 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 509169003952 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 509169003953 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 509169003954 ribosome maturation protein RimP; Reviewed; Region: PRK00092 509169003955 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 of...; Region: Sm_like; cl00259 509169003956 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 of...; Region: Sm_like; cl00259 509169003957 Sm1 motif; other site 509169003958 D3 - B interaction site; other site 509169003959 D1 - D2 interaction site; other site 509169003960 Hfq - Hfq interaction site; other site 509169003961 RNA binding pocket [nucleotide binding]; other site 509169003962 Sm2 motif; other site 509169003963 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 509169003964 NusA N-terminal domain; Region: NusA_N; pfam08529 509169003965 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 509169003966 RNA binding site [nucleotide binding]; other site 509169003967 homodimer interface [polypeptide binding]; other site 509169003968 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 that...; Region: KH-I; cl00098 509169003969 G-X-X-G motif; other site 509169003970 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 509169003971 G-X-X-G motif; other site 509169003972 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 509169003973 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 509169003974 translation initiation factor IF-2; Validated; Region: infB; PRK05306 509169003975 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 509169003976 translation initiation factor IF-2; Region: IF-2; TIGR00487 509169003977 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 509169003978 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 509169003979 G1 box; other site 509169003980 putative GEF interaction site [polypeptide binding]; other site 509169003981 GTP/Mg2+ binding site [chemical binding]; other site 509169003982 Switch I region; other site 509169003983 G2 box; other site 509169003984 G3 box; other site 509169003985 Switch II region; other site 509169003986 G4 box; other site 509169003987 G5 box; other site 509169003988 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 509169003989 Translation-initiation factor 2; Region: IF-2; pfam11987 509169003990 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 509169003991 Ribosome-binding factor A; Region: RBFA; cl00542 509169003992 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK04642 509169003993 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 specific...; Region: PseudoU_synth_EcTruB; cd02573 509169003994 RNA binding site [nucleotide binding]; other site 509169003995 active site 509169003996 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 509169003997 16S/18S rRNA binding site [nucleotide binding]; other site 509169003998 S13e-L30e interaction site [polypeptide binding]; other site 509169003999 25S rRNA binding site [nucleotide binding]; other site 509169004000 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 509169004001 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 509169004002 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 509169004003 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 509169004004 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 509169004005 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 509169004006 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 509169004007 putative nucleic acid binding region [nucleotide binding]; other site 509169004008 G-X-X-G motif; other site 509169004009 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 509169004010 RNA binding site [nucleotide binding]; other site 509169004011 domain interface; other site 509169004012 Uncharacterized protein conserved in bacteria (DUF2272); Region: DUF2272; cl01776 509169004013 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 509169004014 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 509169004015 dimerization interface [polypeptide binding]; other site 509169004016 active site 509169004017 Trm112p-like protein; Region: Trm112p; cl01066 509169004018 AIR carboxylase; Region: AIRC; cl00310 509169004019 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 509169004020 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 509169004021 superoxide dismutase; Provisional; Region: PRK10543 509169004022 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 509169004023 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 509169004024 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 509169004025 putative GSH binding site [chemical binding]; other site 509169004026 catalytic residues [active] 509169004027 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169004028 NAD(P) binding site [chemical binding]; other site 509169004029 active site 509169004030 MarC family integral membrane protein; Region: MarC; cl00919 509169004031 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169004032 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 509169004033 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 509169004034 Histidine kinase; Region: His_kinase; pfam06580 509169004035 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 509169004036 Type II transport protein GspH; Region: GspH; pfam12019 509169004037 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 509169004038 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 509169004039 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 509169004040 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 509169004041 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 509169004042 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 509169004043 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 509169004044 Type II transport protein GspH; Region: GspH; pfam12019 509169004045 excinuclease ABC subunit B; Provisional; Region: PRK05298 509169004046 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 509169004047 ATP binding site [chemical binding]; other site 509169004048 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 509169004049 nucleotide binding region [chemical binding]; other site 509169004050 ATP-binding site [chemical binding]; other site 509169004051 Ultra-violet resistance protein B; Region: UvrB; pfam12344 509169004052 UvrB/uvrC motif; Region: UVR; pfam02151 509169004053 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 509169004054 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169004055 Walker A motif; other site 509169004056 ATP binding site [chemical binding]; other site 509169004057 Walker B motif; other site 509169004058 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 509169004059 VirB8 protein; Region: VirB8; cl01500 509169004060 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 509169004061 VirB7 interaction site; other site 509169004062 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 509169004063 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 509169004064 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 509169004065 Walker A motif; other site 509169004066 hexamer interface [polypeptide binding]; other site 509169004067 ATP binding site [chemical binding]; other site 509169004068 Walker B motif; other site 509169004069 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 509169004070 N-acetyl-D-glucosamine binding site [chemical binding]; other site 509169004071 catalytic residue [active] 509169004072 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 509169004073 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 509169004074 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 509169004075 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169004076 G1 box; other site 509169004077 GTP/Mg2+ binding site [chemical binding]; other site 509169004078 G2 box; other site 509169004079 Switch I region; other site 509169004080 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 509169004081 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 509169004082 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 509169004083 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 509169004084 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 509169004085 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169004086 G1 box; other site 509169004087 GTP/Mg2+ binding site [chemical binding]; other site 509169004088 G2 box; other site 509169004089 Switch I region; other site 509169004090 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 509169004091 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 509169004092 catalytic residue [active] 509169004093 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 509169004094 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 509169004095 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 509169004096 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 509169004097 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169004098 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169004099 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 509169004100 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 509169004101 GPH family sucrose/H+ symporter; Region: GPH_sucrose; TIGR01301 509169004102 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169004103 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 509169004104 Transcriptional regulators [Transcription]; Region: PurR; COG1609 509169004105 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 509169004106 DNA binding site [nucleotide binding] 509169004107 domain linker motif; other site 509169004108 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 509169004109 putative dimerization interface [polypeptide binding]; other site 509169004110 putative ligand binding site [chemical binding]; other site 509169004111 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 509169004112 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 509169004113 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 509169004114 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 509169004115 active site 509169004116 dimer interface [polypeptide binding]; other site 509169004117 motif 1; other site 509169004118 motif 2; other site 509169004119 motif 3; other site 509169004120 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 509169004121 anticodon binding site; other site 509169004122 translation initiation factor IF-3; Region: infC; TIGR00168 509169004123 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 509169004124 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 509169004125 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 509169004126 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 509169004127 23S rRNA binding site [nucleotide binding]; other site 509169004128 L21 binding site [polypeptide binding]; other site 509169004129 L13 binding site [polypeptide binding]; other site 509169004130 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 509169004131 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 509169004132 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 509169004133 dimer interface [polypeptide binding]; other site 509169004134 motif 1; other site 509169004135 active site 509169004136 motif 2; other site 509169004137 motif 3; other site 509169004138 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 509169004139 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 509169004140 putative tRNA-binding site [nucleotide binding]; other site 509169004141 B3/4 domain; Region: B3_4; cl11458 509169004142 tRNA synthetase B5 domain; Region: B5; cl08394 509169004143 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 509169004144 dimer interface [polypeptide binding]; other site 509169004145 motif 1; other site 509169004146 motif 3; other site 509169004147 motif 2; other site 509169004148 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 509169004149 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 509169004150 IHF dimer interface [polypeptide binding]; other site 509169004151 IHF - DNA interface [nucleotide binding]; other site 509169004152 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 509169004153 DNA binding residues [nucleotide binding] 509169004154 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 509169004155 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 509169004156 SLBB domain; Region: SLBB; pfam10531 509169004157 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 509169004158 Chain length determinant protein; Region: Wzz; cl01623 509169004159 Chain length determinant protein; Region: Wzz; cl01623 509169004160 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 509169004161 Bacterial sugar transferase; Region: Bac_transf; cl00939 509169004162 OpgC protein; Region: OpgC_C; cl00792 509169004163 OpgC protein; Region: OpgC_C; cl00792 509169004164 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 509169004165 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 509169004166 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 509169004167 MatE; Region: MatE; cl10513 509169004168 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 509169004169 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 509169004170 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 509169004171 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 509169004172 TraB family; Region: TraB; cl12050 509169004173 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07204 509169004174 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 509169004175 dimer interface [polypeptide binding]; other site 509169004176 active site 509169004177 CoA binding pocket [chemical binding]; other site 509169004178 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 509169004179 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 509169004180 extended (e) SDRs; Region: SDR_e; cd08946 509169004181 NAD(P) binding site [chemical binding]; other site 509169004182 active site 509169004183 substrate binding site [chemical binding]; other site 509169004184 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 509169004185 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 509169004186 homodimer interface [polypeptide binding]; other site 509169004187 active site 509169004188 TDP-binding site; other site 509169004189 acceptor substrate-binding pocket; other site 509169004190 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 509169004191 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 509169004192 TPP-binding site; other site 509169004193 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 509169004194 PYR/PP interface [polypeptide binding]; other site 509169004195 dimer interface [polypeptide binding]; other site 509169004196 TPP binding site [chemical binding]; other site 509169004197 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 509169004198 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 509169004199 active site 509169004200 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 509169004201 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 509169004202 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 509169004203 active site 509169004204 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 509169004205 Late embryogenesis abundant protein; Region: LEA_2; cl12118 509169004206 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 509169004207 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 509169004208 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 509169004209 GIY-YIG motif/motif A; other site 509169004210 active site 509169004211 catalytic site [active] 509169004212 putative DNA binding site [nucleotide binding]; other site 509169004213 metal binding site [ion binding]; metal-binding site 509169004214 PAS fold; Region: PAS_4; pfam08448 509169004215 PAS fold; Region: PAS_4; pfam08448 509169004216 PAS domain S-box; Region: sensory_box; TIGR00229 509169004217 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 509169004218 sensory histidine kinase AtoS; Provisional; Region: PRK11360 509169004219 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169004220 dimer interface [polypeptide binding]; other site 509169004221 phosphorylation site [posttranslational modification] 509169004222 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 509169004223 ATP binding site [chemical binding]; other site 509169004224 G-X-G motif; other site 509169004225 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 509169004226 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 509169004227 active site 509169004228 phosphorylation site [posttranslational modification] 509169004229 intermolecular recognition site; other site 509169004230 dimerization interface [polypeptide binding]; other site 509169004231 Stress-induced bacterial acidophilic repeat motif; Region: KGG; pfam10685 509169004232 Predicted methyltransferase [General function prediction only]; Region: COG3897 509169004235 histidine kinase; Provisional; Region: PRK13557 509169004236 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 509169004237 putative active site [active] 509169004238 heme pocket [chemical binding]; other site 509169004239 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169004240 dimer interface [polypeptide binding]; other site 509169004241 phosphorylation site [posttranslational modification] 509169004242 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 509169004243 ATP binding site [chemical binding]; other site 509169004244 Mg2+ binding site [ion binding]; other site 509169004245 G-X-G motif; other site 509169004246 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 509169004247 active site 509169004248 phosphorylation site [posttranslational modification] 509169004249 intermolecular recognition site; other site 509169004250 dimerization interface [polypeptide binding]; other site 509169004251 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 509169004252 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 509169004253 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 509169004254 minor groove reading motif; other site 509169004255 helix-hairpin-helix signature motif; other site 509169004256 substrate binding pocket [chemical binding]; other site 509169004257 active site 509169004258 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 509169004259 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 509169004260 DNA binding and oxoG recognition site [nucleotide binding] 509169004261 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 509169004262 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 509169004263 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 509169004264 GTP binding site [chemical binding]; other site 509169004265 PAS fold; Region: PAS_4; pfam08448 509169004266 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 509169004267 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 509169004268 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 509169004269 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 509169004270 Proline racemase; Region: Pro_racemase; pfam05544 509169004271 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 509169004272 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169004273 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 509169004274 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 509169004275 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 509169004276 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 509169004277 inhibitor site; inhibition site 509169004278 active site 509169004279 dimer interface [polypeptide binding]; other site 509169004280 catalytic residue [active] 509169004281 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 509169004282 dimer interface [polypeptide binding]; other site 509169004283 NADP binding site [chemical binding]; other site 509169004284 catalytic residues [active] 509169004285 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 509169004286 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 509169004287 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 509169004288 active site 509169004289 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 509169004290 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4805 509169004291 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 509169004292 Amino acid permease; Region: AA_permease; cl00524 509169004293 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 509169004294 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 509169004295 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 509169004296 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 509169004297 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169004298 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169004299 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 509169004300 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 509169004301 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 509169004302 substrate binding site [chemical binding]; other site 509169004303 active site 509169004304 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 509169004305 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 509169004306 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 509169004307 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169004308 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169004309 FtsI repressor; Provisional; Region: PRK10883 509169004310 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; cl06815 509169004311 Transposase domain (DUF772); Region: DUF772; cl12084 509169004312 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 509169004313 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 509169004314 RHS Repeat; Region: RHS_repeat; cl11982 509169004315 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 509169004316 RHS Repeat; Region: RHS_repeat; cl11982 509169004317 RHS Repeat; Region: RHS_repeat; cl11982 509169004318 RHS Repeat; Region: RHS_repeat; cl11982 509169004319 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 509169004320 Integrase core domain; Region: rve; cl01316 509169004321 heat shock protein 90; Provisional; Region: PRK05218 509169004322 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 509169004323 ATP binding site [chemical binding]; other site 509169004324 Mg2+ binding site [ion binding]; other site 509169004325 G-X-G motif; other site 509169004326 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 509169004327 S-adenosylmethionine binding site [chemical binding]; other site 509169004328 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 509169004329 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 509169004330 active site 509169004331 (T/H)XGH motif; other site 509169004332 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 509169004333 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 509169004334 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 509169004335 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 509169004336 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 509169004337 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 509169004338 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 509169004339 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169004340 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 509169004341 3-phytase (myo-inositol-hexaphosphate 3-phosphohydrolase) [Lipid metabolism]; Region: Phy; COG4247 509169004342 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 509169004343 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 509169004344 active site 509169004345 metal binding site [ion binding]; metal-binding site 509169004346 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 509169004347 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 509169004348 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 509169004349 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 509169004350 catalytic residue [active] 509169004351 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 509169004352 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169004353 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 509169004354 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 509169004355 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 509169004356 Preprotein translocase subunit; Region: YajC; cl00806 509169004357 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 509169004358 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 509169004359 Protein export membrane protein; Region: SecD_SecF; cl14618 509169004360 Preprotein translocase subunit SecF [Intracellular trafficking and secretion]; Region: SecF; COG0341 509169004361 Protein export membrane protein; Region: SecD_SecF; cl14618 509169004362 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 509169004363 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 509169004364 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 509169004365 P-loop; other site 509169004366 active site 509169004367 phosphorylation site [posttranslational modification] 509169004368 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 509169004369 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 509169004370 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 509169004371 putative substrate binding site [chemical binding]; other site 509169004372 putative ATP binding site [chemical binding]; other site 509169004373 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 509169004374 active site 509169004375 phosphorylation site [posttranslational modification] 509169004376 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 509169004377 dimerization domain swap beta strand [polypeptide binding]; other site 509169004378 regulatory protein interface [polypeptide binding]; other site 509169004379 active site 509169004380 regulatory phosphorylation site [posttranslational modification]; other site 509169004381 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 509169004382 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 509169004383 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 509169004384 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; cl09155 509169004385 Transcriptional regulators [Transcription]; Region: PurR; COG1609 509169004386 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 509169004387 DNA binding site [nucleotide binding] 509169004388 domain linker motif; other site 509169004389 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_4; cd06280 509169004390 putative dimerization interface [polypeptide binding]; other site 509169004391 putative ligand binding site [chemical binding]; other site 509169004392 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 509169004393 Protein export membrane protein; Region: SecD_SecF; cl14618 509169004394 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 509169004395 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 509169004396 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 509169004397 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169004398 Glutamate dehydrogenase N terminal; Region: GDH_N; pfam12466 509169004399 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 509169004400 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169004401 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 509169004402 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 509169004403 conserved cys residue [active] 509169004404 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 509169004405 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 509169004406 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 509169004407 catalytic triad [active] 509169004408 conserved cis-peptide bond; other site 509169004409 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169004410 putative transporter; Provisional; Region: PRK10504 509169004411 putative substrate translocation pore; other site 509169004412 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169004413 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 509169004414 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 509169004415 active site 509169004416 phosphorylation site [posttranslational modification] 509169004417 intermolecular recognition site; other site 509169004418 dimerization interface [polypeptide binding]; other site 509169004419 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 509169004420 Zn2+ binding site [ion binding]; other site 509169004421 Mg2+ binding site [ion binding]; other site 509169004422 CHASE domain; Region: CHASE; cl01369 509169004423 PAS domain S-box; Region: sensory_box; TIGR00229 509169004424 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 509169004425 putative active site [active] 509169004426 heme pocket [chemical binding]; other site 509169004427 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 509169004428 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 509169004429 putative active site [active] 509169004430 heme pocket [chemical binding]; other site 509169004431 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169004432 dimer interface [polypeptide binding]; other site 509169004433 phosphorylation site [posttranslational modification] 509169004434 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 509169004435 ATP binding site [chemical binding]; other site 509169004436 Mg2+ binding site [ion binding]; other site 509169004437 G-X-G motif; other site 509169004438 Response regulator receiver domain; Region: Response_reg; pfam00072 509169004439 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 509169004440 active site 509169004441 phosphorylation site [posttranslational modification] 509169004442 intermolecular recognition site; other site 509169004443 dimerization interface [polypeptide binding]; other site 509169004444 Response regulator receiver domain; Region: Response_reg; pfam00072 509169004445 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 509169004446 active site 509169004447 phosphorylation site [posttranslational modification] 509169004448 intermolecular recognition site; other site 509169004449 dimerization interface [polypeptide binding]; other site 509169004450 Predicted membrane protein [Function unknown]; Region: COG2733 509169004451 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 509169004452 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 509169004453 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 509169004454 inhibitor-cofactor binding pocket; inhibition site 509169004455 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169004456 catalytic residue [active] 509169004457 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 509169004458 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169004459 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 509169004460 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 509169004461 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 509169004462 putative molybdopterin cofactor binding site [chemical binding]; other site 509169004463 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 509169004464 putative molybdopterin cofactor binding site; other site 509169004465 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169004466 metabolite-proton symporter; Region: 2A0106; TIGR00883 509169004467 putative substrate translocation pore; other site 509169004468 hypothetical protein; Provisional; Region: PRK00808 509169004469 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl11605 509169004470 octamerization interface [polypeptide binding]; other site 509169004471 diferric-oxygen binding site [ion binding]; other site 509169004472 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 509169004473 Response regulator receiver domain; Region: Response_reg; pfam00072 509169004474 active site 509169004475 phosphorylation site [posttranslational modification] 509169004476 intermolecular recognition site; other site 509169004477 dimerization interface [polypeptide binding]; other site 509169004478 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169004479 metal binding site [ion binding]; metal-binding site 509169004480 active site 509169004481 I-site; other site 509169004482 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169004483 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 509169004484 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 509169004485 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 509169004486 Peptidase C26; Region: Peptidase_C26; pfam07722 509169004487 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 509169004488 catalytic triad [active] 509169004489 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 509169004490 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 509169004491 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 509169004492 putative aminotransferase; Validated; Region: PRK07480 509169004493 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 509169004494 inhibitor-cofactor binding pocket; inhibition site 509169004495 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169004496 catalytic residue [active] 509169004497 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 509169004498 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 509169004499 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 509169004500 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 509169004501 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169004502 putative substrate translocation pore; other site 509169004503 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 509169004504 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 509169004505 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169004506 Walker A/P-loop; other site 509169004507 ATP binding site [chemical binding]; other site 509169004508 Q-loop/lid; other site 509169004509 ABC transporter signature motif; other site 509169004510 Walker B; other site 509169004511 D-loop; other site 509169004512 H-loop/switch region; other site 509169004513 TOBE domain; Region: TOBE_2; cl01440 509169004514 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 509169004515 dimer interface [polypeptide binding]; other site 509169004516 conserved gate region; other site 509169004517 putative PBP binding loops; other site 509169004518 ABC-ATPase subunit interface; other site 509169004519 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 509169004520 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 509169004521 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 509169004522 ABC-ATPase subunit interface; other site 509169004523 putative PBP binding loops; other site 509169004526 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 509169004527 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 509169004528 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 509169004529 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 509169004530 Transporter associated domain; Region: CorC_HlyC; cl08393 509169004531 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 509169004532 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 509169004533 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169004534 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 509169004535 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 509169004536 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 509169004537 FeS/SAM binding site; other site 509169004538 TRAM domain; Region: TRAM; cl01282 509169004539 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 509169004540 putative C-terminal domain interface [polypeptide binding]; other site 509169004541 putative GSH binding site (G-site) [chemical binding]; other site 509169004542 putative dimer interface [polypeptide binding]; other site 509169004543 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 509169004544 dimer interface [polypeptide binding]; other site 509169004545 N-terminal domain interface [polypeptide binding]; other site 509169004546 putative substrate binding pocket (H-site) [chemical binding]; other site 509169004547 Predicted transcriptional regulator [Transcription]; Region: COG2378 509169004548 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169004549 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 509169004550 N-acetyl-D-glucosamine binding site [chemical binding]; other site 509169004551 catalytic residue [active] 509169004552 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 509169004553 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 509169004554 [2Fe-2S] cluster binding site [ion binding]; other site 509169004555 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 509169004556 Qi binding site; other site 509169004557 intrachain domain interface; other site 509169004558 interchain domain interface [polypeptide binding]; other site 509169004559 cytochrome b; Provisional; Region: CYTB; MTH00156 509169004560 heme bH binding site [chemical binding]; other site 509169004561 heme bL binding site [chemical binding]; other site 509169004562 Qo binding site; other site 509169004563 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cl00193 509169004564 interchain domain interface [polypeptide binding]; other site 509169004565 intrachain domain interface; other site 509169004566 Qi binding site; other site 509169004567 Qo binding site; other site 509169004568 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 509169004569 stringent starvation protein A; Provisional; Region: sspA; PRK09481 509169004570 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 509169004571 C-terminal domain interface [polypeptide binding]; other site 509169004572 putative GSH binding site (G-site) [chemical binding]; other site 509169004573 dimer interface [polypeptide binding]; other site 509169004574 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 509169004575 N-terminal domain interface [polypeptide binding]; other site 509169004576 Stringent starvation protein B; Region: SspB; cl01120 509169004577 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 509169004578 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 509169004579 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 509169004580 ATP binding site [chemical binding]; other site 509169004581 putative Mg++ binding site [ion binding]; other site 509169004582 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 509169004583 nucleotide binding region [chemical binding]; other site 509169004584 ATP-binding site [chemical binding]; other site 509169004585 DEAD/H associated; Region: DEAD_assoc; pfam08494 509169004586 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 509169004587 active site 509169004588 DNA binding site [nucleotide binding] 509169004589 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 509169004590 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 509169004591 dimerization interface [polypeptide binding]; other site 509169004592 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 509169004593 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 transmembrane...; Region: TarH; cl00144 509169004594 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 509169004595 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 509169004596 GAF domain; Region: GAF; cl00853 509169004597 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169004598 metal binding site [ion binding]; metal-binding site 509169004599 active site 509169004600 I-site; other site 509169004601 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 509169004602 ParB-like nuclease domain; Region: ParBc; cl02129 509169004603 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 509169004604 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 509169004605 non-specific DNA binding site [nucleotide binding]; other site 509169004606 salt bridge; other site 509169004607 sequence-specific DNA binding site [nucleotide binding]; other site 509169004608 hypothetical protein; Region: PHA00676 509169004609 integrase; Provisional; Region: PRK09692 509169004610 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 509169004611 active site 509169004612 Int/Topo IB signature motif; other site 509169004613 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 509169004614 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 509169004615 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 509169004616 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 509169004617 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 509169004618 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 509169004619 active site 509169004620 DNA binding site [nucleotide binding] 509169004621 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 509169004622 DNA binding site [nucleotide binding] 509169004623 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 509169004624 nucleotide binding site [chemical binding]; other site 509169004625 ribonuclease D; Region: rnd; TIGR01388 509169004626 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 509169004627 putative active site [active] 509169004628 catalytic site [active] 509169004629 putative substrate binding site [chemical binding]; other site 509169004630 TIGR02680 family protein; Region: TIGR02680 509169004631 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 509169004632 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 509169004633 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 509169004634 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 509169004635 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 509169004636 generic binding surface II; other site 509169004637 generic binding surface I; other site 509169004638 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 509169004639 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 509169004640 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 509169004641 putative carbohydrate kinase; Provisional; Region: PRK10565 509169004642 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 509169004643 putative substrate binding site [chemical binding]; other site 509169004644 putative ATP binding site [chemical binding]; other site 509169004645 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 509169004646 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 509169004647 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 509169004648 active site 509169004649 metal binding site [ion binding]; metal-binding site 509169004650 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 509169004651 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 509169004652 ATP binding site [chemical binding]; other site 509169004653 Mg2+ binding site [ion binding]; other site 509169004654 G-X-G motif; other site 509169004655 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 509169004656 ATP binding site [chemical binding]; other site 509169004657 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 509169004658 Protein of unknown function (DUF1684); Region: DUF1684; cl01327 509169004659 TraB family; Region: TraB; cl12050 509169004660 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 509169004661 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 509169004662 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 509169004663 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 509169004664 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 509169004665 NAD(P) binding site [chemical binding]; other site 509169004666 homotetramer interface [polypeptide binding]; other site 509169004667 homodimer interface [polypeptide binding]; other site 509169004668 active site 509169004669 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 509169004670 active site 509169004671 HIGH motif; other site 509169004672 nucleotide binding site [chemical binding]; other site 509169004673 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 509169004674 active site 509169004675 KMSKS motif; other site 509169004676 Peptidase family M48; Region: Peptidase_M48; cl12018 509169004677 PAS domain S-box; Region: sensory_box; TIGR00229 509169004678 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169004679 metal binding site [ion binding]; metal-binding site 509169004680 active site 509169004681 I-site; other site 509169004682 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 509169004683 Predicted flavoproteins [General function prediction only]; Region: COG2081 509169004684 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169004685 YaeQ protein; Region: YaeQ; cl01913 509169004686 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 509169004687 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 509169004688 DNA-binding site [nucleotide binding]; DNA binding site 509169004689 RNA-binding motif; other site 509169004690 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 509169004691 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 509169004692 putative C-terminal domain interface [polypeptide binding]; other site 509169004693 putative GSH binding site (G-site) [chemical binding]; other site 509169004694 putative dimer interface [polypeptide binding]; other site 509169004695 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 509169004696 putative N-terminal domain interface [polypeptide binding]; other site 509169004697 putative dimer interface [polypeptide binding]; other site 509169004698 putative substrate binding pocket (H-site) [chemical binding]; other site 509169004699 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 509169004700 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 509169004701 substrate binding pocket [chemical binding]; other site 509169004702 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 509169004703 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 509169004704 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 509169004705 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 509169004706 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 509169004707 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 509169004708 ATP binding site [chemical binding]; other site 509169004709 Mg++ binding site [ion binding]; other site 509169004710 motif III; other site 509169004711 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 509169004712 nucleotide binding region [chemical binding]; other site 509169004713 ATP-binding site [chemical binding]; other site 509169004714 DbpA RNA binding domain; Region: DbpA; pfam03880 509169004715 ABC transporter ATPase component; Reviewed; Region: PRK11147 509169004716 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 ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 509169004717 Walker A/P-loop; other site 509169004718 ATP binding site [chemical binding]; other site 509169004719 Q-loop/lid; other site 509169004720 ABC transporter signature motif; other site 509169004721 Walker B; other site 509169004722 D-loop; other site 509169004723 H-loop/switch region; other site 509169004724 ABC transporter; Region: ABC_tran_2; pfam12848 509169004725 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 facilitated...; Region: ABCF_EF-3; cd03221 509169004726 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 509169004727 putative RNAase interaction site [polypeptide binding]; other site 509169004728 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 509169004729 active site 509169004730 barstar interaction site; other site 509169004731 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 509169004732 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 509169004733 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 509169004734 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 509169004735 active site 509169004736 dimerization interface [polypeptide binding]; other site 509169004737 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 509169004738 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 509169004739 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 509169004740 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 509169004741 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 509169004742 dimerization interface [polypeptide binding]; other site 509169004743 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169004744 metal binding site [ion binding]; metal-binding site 509169004745 active site 509169004746 I-site; other site 509169004747 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 509169004748 KamA family protein; Region: TIGR00238; cl15377 509169004749 Radical SAM superfamily; Region: Radical_SAM; pfam04055 509169004750 elongation factor P; Validated; Region: PRK00529 509169004751 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 509169004752 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 509169004753 RNA binding site [nucleotide binding]; other site 509169004754 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 509169004755 RNA binding site [nucleotide binding]; other site 509169004756 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 509169004757 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 509169004758 active site 509169004759 putative substrate binding pocket [chemical binding]; other site 509169004760 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 509169004761 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 509169004762 S-adenosylmethionine binding site [chemical binding]; other site 509169004763 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 509169004764 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 509169004765 motif II; other site 509169004766 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 509169004767 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 509169004768 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 509169004769 acyl-CoA thioesterase; Provisional; Region: PRK10531 509169004770 Pectinesterase; Region: Pectinesterase; cl01911 509169004771 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 509169004772 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 509169004773 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 509169004774 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 509169004775 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 509169004776 Amino acid permease; Region: AA_permease; cl00524 509169004777 lysyl-tRNA synthetase; Provisional; Region: lysS; PRK02983 509169004778 Peptidase family M23; Region: Peptidase_M23; pfam01551 509169004779 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 509169004780 dihydroorotase; Reviewed; Region: PRK09236 509169004781 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 509169004782 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 509169004783 active site 509169004784 Domain of unknown function DUF37; Region: DUF37; cl00506 509169004785 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 509169004786 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 509169004787 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 509169004788 enterobactin exporter EntS; Provisional; Region: PRK10489 509169004789 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169004790 putative substrate translocation pore; other site 509169004791 Fe-S metabolism associated domain; Region: SufE; cl00951 509169004792 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 509169004793 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 509169004794 active site 509169004795 HIGH motif; other site 509169004796 nucleotide binding site [chemical binding]; other site 509169004797 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 509169004798 KMSKS motif; other site 509169004799 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 509169004800 N-acetylornithine carbamoyltransferase; Reviewed; Region: PRK04523 509169004801 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 509169004802 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169004803 OsmC-like protein; Region: OsmC; cl00767 509169004804 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 509169004805 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 509169004806 ANP binding site [chemical binding]; other site 509169004807 Substrate Binding Site II [chemical binding]; other site 509169004808 Substrate Binding Site I [chemical binding]; other site 509169004809 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 509169004810 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 509169004811 metal binding site [ion binding]; metal-binding site 509169004812 acetylglutamate kinase; Provisional; Region: PRK04531 509169004813 AAK_NAGK-fArgBP: N-Acetyl-L-glutamate kinase (NAGK) of the fungal arginine-biosynthetic pathway (fArgBP). The nuclear-encoded, mitochondrial polyprotein precursor with an N-terminal NAGK (ArgB) domain (this CD), a central DUF619 domain, and a C-terminal...; Region: AAK_NAGK-fArgBP; cd04252 509169004814 putative nucleotide binding site [chemical binding]; other site 509169004815 putative N-acetyl-L-glutamate binding site [chemical binding]; other site 509169004816 DUF619 domain of various N-acetylglutamate Synthases of the fungal arginine-biosynthetic pathway and urea cycle found in humans and fish; Region: DUF619-NAGS; cd04264 509169004817 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 509169004818 N-acetyl-gamma-glutamyl-phosphate reductase, common form; Region: argC; TIGR01850 509169004819 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169004820 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 509169004821 argininosuccinate lyase; Provisional; Region: PRK00855 509169004822 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 509169004823 active sites [active] 509169004824 tetramer interface [polypeptide binding]; other site 509169004825 Cupin domain; Region: Cupin_2; cl09118 509169004826 YCII-related domain; Region: YCII; cl00999 509169004827 gamma-glutamyl kinase; Provisional; Region: PRK05429 509169004828 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 509169004829 nucleotide binding site [chemical binding]; other site 509169004830 PUA domain; Region: PUA; cl00607 509169004831 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 509169004832 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 509169004833 putative catalytic cysteine [active] 509169004834 Predicted acyl esterases [General function prediction only]; Region: COG2936 509169004835 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 509169004836 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 509169004837 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169004838 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 509169004839 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 509169004840 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 509169004841 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 509169004842 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 509169004843 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169004844 Walker A/P-loop; other site 509169004845 ATP binding site [chemical binding]; other site 509169004846 Q-loop/lid; other site 509169004847 ABC transporter signature motif; other site 509169004848 Walker B; other site 509169004849 D-loop; other site 509169004850 H-loop/switch region; other site 509169004851 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 509169004852 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 509169004853 Walker A/P-loop; other site 509169004854 ATP binding site [chemical binding]; other site 509169004855 Q-loop/lid; other site 509169004856 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 509169004857 DNA-binding site [nucleotide binding]; DNA binding site 509169004858 RNA-binding motif; other site 509169004859 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 509169004860 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 509169004861 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 509169004862 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 509169004863 Cytochrome C biogenesis protein; Region: CcmH; cl01179 509169004864 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 509169004865 catalytic residues [active] 509169004866 central insert; other site 509169004867 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 509169004868 CcmE; Region: CcmE; cl00994 509169004869 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 509169004870 CcmB protein; Region: CcmB; cl01016 509169004871 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13543 509169004872 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169004873 Walker A/P-loop; other site 509169004874 ATP binding site [chemical binding]; other site 509169004875 Q-loop/lid; other site 509169004876 ABC transporter signature motif; other site 509169004877 Walker B; other site 509169004878 D-loop; other site 509169004879 H-loop/switch region; other site 509169004880 methionine aminotransferase; Validated; Region: PRK09082 509169004881 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 509169004882 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169004883 homodimer interface [polypeptide binding]; other site 509169004884 catalytic residue [active] 509169004885 Predicted amidohydrolase [General function prediction only]; Region: COG0388 509169004886 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 509169004887 putative active site [active] 509169004888 catalytic triad [active] 509169004889 multimer interface [polypeptide binding]; other site 509169004890 dimer interface [polypeptide binding]; other site 509169004891 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 509169004892 Protein of unknown function (DUF1134); Region: DUF1134; cl02235 509169004893 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 509169004894 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 509169004895 RNA binding surface [nucleotide binding]; other site 509169004896 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 509169004897 active site 509169004898 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 509169004899 ScpA/B protein; Region: ScpA_ScpB; cl00598 509169004900 YCII-related domain; Region: YCII; cl00999 509169004901 BolA-like protein; Region: BolA; cl00386 509169004902 Transcriptional regulators [Transcription]; Region: PurR; COG1609 509169004903 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 509169004904 DNA binding site [nucleotide binding] 509169004905 domain linker motif; other site 509169004906 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 509169004907 dimerization interface [polypeptide binding]; other site 509169004908 ligand binding site [chemical binding]; other site 509169004909 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169004910 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 509169004911 Uncharacterized protein conserved in bacteria (DUF2329); Region: DUF2329; pfam10091 509169004912 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 509169004913 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 509169004914 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 509169004915 dimer interface [polypeptide binding]; other site 509169004916 conserved gate region; other site 509169004917 putative PBP binding loops; other site 509169004918 ABC-ATPase subunit interface; other site 509169004919 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 509169004920 dimer interface [polypeptide binding]; other site 509169004921 conserved gate region; other site 509169004922 putative PBP binding loops; other site 509169004923 ABC-ATPase subunit interface; other site 509169004924 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 509169004925 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 509169004926 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 509169004927 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 509169004928 putative catalytic site [active] 509169004929 putative metal binding site [ion binding]; other site 509169004930 putative phosphate binding site [ion binding]; other site 509169004931 TraB family; Region: TraB; cl12050 509169004932 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 509169004933 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 509169004934 N-carbamolyputrescine amidase; Region: PLN02747 509169004935 putative active site; other site 509169004936 catalytic triad [active] 509169004937 putative dimer interface [polypeptide binding]; other site 509169004938 agmatine deiminase; Region: agmatine_aguA; TIGR03380 509169004939 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 509169004940 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 509169004941 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 509169004942 cytidylate kinase; Provisional; Region: cmk; PRK00023 509169004943 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 509169004944 CMP-binding site; other site 509169004945 The sites determining sugar specificity; other site 509169004946 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 509169004947 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 509169004948 RNA binding site [nucleotide binding]; other site 509169004949 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 509169004950 RNA binding site [nucleotide binding]; other site 509169004951 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 509169004952 RNA binding site [nucleotide binding]; other site 509169004953 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 509169004954 RNA binding site [nucleotide binding]; other site 509169004955 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 509169004956 RNA binding site [nucleotide binding]; other site 509169004957 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 509169004958 RNA binding site [nucleotide binding]; other site 509169004959 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 509169004960 IHF dimer interface [polypeptide binding]; other site 509169004961 IHF - DNA interface [nucleotide binding]; other site 509169004962 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 509169004963 tetratricopeptide repeat protein; Provisional; Region: PRK11788 509169004964 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 509169004965 binding surface 509169004966 TPR motif; other site 509169004967 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 509169004968 binding surface 509169004969 TPR motif; other site 509169004970 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 509169004971 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 509169004972 Mg++ binding site [ion binding]; other site 509169004973 putative catalytic motif [active] 509169004974 putative substrate binding site [chemical binding]; other site 509169004975 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 509169004976 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 509169004977 NAD(P) binding site [chemical binding]; other site 509169004978 homodimer interface [polypeptide binding]; other site 509169004979 substrate binding site [chemical binding]; other site 509169004980 active site 509169004981 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 509169004982 active site 509169004983 tetramer interface; other site 509169004984 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 509169004985 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 509169004986 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169004987 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 509169004988 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 509169004989 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 509169004990 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 509169004991 homodimer interface [polypeptide binding]; other site 509169004992 NADP binding site [chemical binding]; other site 509169004993 substrate binding site [chemical binding]; other site 509169004994 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 509169004995 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 509169004996 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 509169004997 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 guanine...; Region: IMPDH; cd00381 509169004998 active site 509169004999 GMP synthase; Reviewed; Region: guaA; PRK00074 509169005000 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 509169005001 AMP/PPi binding site [chemical binding]; other site 509169005002 candidate oxyanion hole; other site 509169005003 catalytic triad [active] 509169005004 potential glutamine specificity residues [chemical binding]; other site 509169005005 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 509169005006 ATP Binding subdomain [chemical binding]; other site 509169005007 Ligand Binding sites [chemical binding]; other site 509169005008 Dimerization subdomain; other site 509169005009 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 509169005010 dimerization interface [polypeptide binding]; other site 509169005011 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 509169005012 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 509169005013 active site 509169005014 phosphorylation site [posttranslational modification] 509169005015 intermolecular recognition site; other site 509169005016 dimerization interface [polypeptide binding]; other site 509169005017 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 509169005018 DNA binding residues [nucleotide binding] 509169005019 dimerization interface [polypeptide binding]; other site 509169005020 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 509169005021 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 509169005022 Histidine kinase; Region: HisKA_3; pfam07730 509169005023 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 509169005024 ATP binding site [chemical binding]; other site 509169005025 Mg2+ binding site [ion binding]; other site 509169005026 G-X-G motif; other site 509169005027 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 509169005028 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 509169005029 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 509169005030 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 509169005031 Isochorismatase family; Region: Isochorismatase; pfam00857 509169005032 catalytic triad [active] 509169005033 dimer interface [polypeptide binding]; other site 509169005034 conserved cis-peptide bond; other site 509169005035 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 509169005036 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 509169005037 active site 509169005038 Bacterial protein of unknown function (DUF894); Region: DUF894; pfam05977 509169005039 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169005040 putative substrate translocation pore; other site 509169005041 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 509169005042 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 509169005043 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 509169005044 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 509169005045 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 509169005046 manganese transport regulator MntR; Provisional; Region: PRK11050 509169005047 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169005048 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 509169005049 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 509169005050 nucleoside/Zn binding site; other site 509169005051 dimer interface [polypeptide binding]; other site 509169005052 catalytic motif [active] 509169005053 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 509169005054 putative active site [active] 509169005055 putative substrate binding site [chemical binding]; other site 509169005056 catalytic site [active] 509169005057 dimer interface [polypeptide binding]; other site 509169005058 Mechanosensitive ion channel; Region: MS_channel; pfam00924 509169005059 phosphoenolpyruvate synthase; Validated; Region: PRK06464 509169005060 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 509169005061 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 509169005062 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; cl09155 509169005063 Domain of unknown function (DUF299); Region: DUF299; cl00780 509169005064 Protein of unknown function (DUF1249); Region: DUF1249; cl01223 509169005065 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 509169005066 putative active site [active] 509169005067 nucleotide binding site [chemical binding]; other site 509169005068 nudix motif; other site 509169005069 putative metal binding site [ion binding]; other site 509169005070 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 509169005071 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169005072 NAD(P) binding site [chemical binding]; other site 509169005073 active site 509169005074 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 509169005075 Poly(R)-hydroxyalkanoic acid synthase subunit (PHA_synth_III_E); Region: PHA_synth_III_E; cl09914 509169005076 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 509169005077 PspC domain; Region: PspC; cl00864 509169005078 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169005079 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 509169005080 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 509169005081 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 509169005082 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; cl00243 509169005083 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 509169005084 RNA binding site [nucleotide binding]; other site 509169005085 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 509169005086 GAF domain; Region: GAF; cl00853 509169005087 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 509169005088 PAS fold; Region: PAS_3; pfam08447 509169005089 putative active site [active] 509169005090 heme pocket [chemical binding]; other site 509169005091 PAS domain S-box; Region: sensory_box; TIGR00229 509169005092 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 509169005093 putative active site [active] 509169005094 heme pocket [chemical binding]; other site 509169005095 GAF domain; Region: GAF; cl00853 509169005096 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169005097 dimer interface [polypeptide binding]; other site 509169005098 phosphorylation site [posttranslational modification] 509169005099 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 509169005100 ATP binding site [chemical binding]; other site 509169005101 Mg2+ binding site [ion binding]; other site 509169005102 G-X-G motif; other site 509169005103 Response regulator receiver domain; Region: Response_reg; pfam00072 509169005104 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 509169005105 active site 509169005106 phosphorylation site [posttranslational modification] 509169005107 intermolecular recognition site; other site 509169005108 dimerization interface [polypeptide binding]; other site 509169005109 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 509169005110 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 509169005111 active site 509169005112 phosphorylation site [posttranslational modification] 509169005113 intermolecular recognition site; other site 509169005114 dimerization interface [polypeptide binding]; other site 509169005115 Cytochrome c; Region: Cytochrom_C; cl11414 509169005116 Cytochrome c; Region: Cytochrom_C; cl11414 509169005117 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 509169005118 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 509169005119 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 509169005120 Protein export membrane protein; Region: SecD_SecF; cl14618 509169005121 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 509169005122 Protein export membrane protein; Region: SecD_SecF; cl14618 509169005123 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 509169005124 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 509169005125 active site 509169005126 intersubunit interface [polypeptide binding]; other site 509169005127 catalytic residue [active] 509169005128 Dehydratase family; Region: ILVD_EDD; cl00340 509169005129 6-phosphogluconate dehydratase; Region: edd; TIGR01196 509169005130 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 509169005131 putative active site [active] 509169005132 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 509169005133 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 509169005134 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 509169005135 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 509169005136 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 509169005137 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 509169005138 Walker A/P-loop; other site 509169005139 ATP binding site [chemical binding]; other site 509169005140 Q-loop/lid; other site 509169005141 ABC transporter signature motif; other site 509169005142 Walker B; other site 509169005143 D-loop; other site 509169005144 H-loop/switch region; other site 509169005145 TOBE domain; Region: TOBE_2; cl01440 509169005146 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 509169005147 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 509169005148 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 509169005149 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 509169005150 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 509169005151 Iron-sulfur protein interface; other site 509169005152 proximal quinone binding site [chemical binding]; other site 509169005153 SdhD (CybS) interface [polypeptide binding]; other site 509169005154 proximal heme binding site [chemical binding]; other site 509169005155 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 509169005156 putative SdhC subunit interface [polypeptide binding]; other site 509169005157 putative proximal heme binding site [chemical binding]; other site 509169005158 putative Iron-sulfur protein interface [polypeptide binding]; other site 509169005159 putative proximal quinone binding site; other site 509169005160 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 509169005161 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169005162 domain; Region: Succ_DH_flav_C; pfam02910 509169005163 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 509169005164 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 509169005165 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 509169005166 FtsX-like permease family; Region: FtsX; pfam02687 509169005167 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 509169005168 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 509169005169 Walker A/P-loop; other site 509169005170 ATP binding site [chemical binding]; other site 509169005171 Q-loop/lid; other site 509169005172 ABC transporter signature motif; other site 509169005173 Walker B; other site 509169005174 D-loop; other site 509169005175 H-loop/switch region; other site 509169005176 progesterone 5-beta-reductase-like proteins (5beta-POR), atypical (a) SDRs; Region: 5beta-POR_like_SDR_a; cd08948 509169005177 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 509169005178 NAD(P) binding site [chemical binding]; other site 509169005179 active site 509169005180 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 509169005181 Competence protein; Region: Competence; cl00471 509169005182 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 509169005183 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 509169005184 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 509169005185 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 509169005186 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 509169005187 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 509169005188 Walker A/P-loop; other site 509169005189 ATP binding site [chemical binding]; other site 509169005190 Q-loop/lid; other site 509169005191 ABC transporter signature motif; other site 509169005192 Walker B; other site 509169005193 D-loop; other site 509169005194 H-loop/switch region; other site 509169005195 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 509169005196 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 509169005197 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 509169005198 Ligand binding site; other site 509169005199 oligomer interface; other site 509169005200 Low molecular weight phosphatase family; Region: LMWPc; cd00115 509169005201 active site 509169005202 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 509169005203 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 509169005204 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 509169005205 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 509169005206 GIY-YIG motif/motif A; other site 509169005207 active site 509169005208 catalytic site [active] 509169005209 putative DNA binding site [nucleotide binding]; other site 509169005210 metal binding site [ion binding]; metal-binding site 509169005211 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 509169005212 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 509169005213 integrase; Provisional; Region: PRK09692 509169005214 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 509169005215 active site 509169005216 Int/Topo IB signature motif; other site 509169005217 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 509169005218 Avirulence protein; Region: AvrB_AvrC; pfam05394 509169005219 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 509169005220 dimerization interface [polypeptide binding]; other site 509169005221 substrate binding pocket [chemical binding]; other site 509169005222 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 509169005223 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169005224 putative transposase OrfB; Reviewed; Region: PHA02517 509169005225 Integrase core domain; Region: rve; cl01316 509169005226 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169005227 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 509169005228 Integrase core domain; Region: rve; cl01316 509169005229 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 509169005230 Transcriptional regulator [Transcription]; Region: LysR; COG0583 509169005231 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169005232 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 509169005233 dimerization interface [polypeptide binding]; other site 509169005234 substrate binding pocket [chemical binding]; other site 509169005235 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 509169005236 Integrase core domain; Region: rve; cl01316 509169005237 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169005238 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169005239 hemin storage system protein; Provisional; Region: hmsS; cl14676 509169005240 TspO/MBR family; Region: TspO_MBR; cl01379 509169005241 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 509169005242 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 509169005243 putative catalytic residues [active] 509169005244 putative nucleotide binding site [chemical binding]; other site 509169005245 putative aspartate binding site [chemical binding]; other site 509169005246 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 509169005247 dimer interface [polypeptide binding]; other site 509169005248 putative threonine allosteric regulatory site; other site 509169005249 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 509169005250 putative threonine allosteric regulatory site; other site 509169005251 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169005252 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 509169005253 homoserine kinase; Provisional; Region: PRK01212 509169005254 EthD protein; Region: EthD; cl06234 509169005255 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 509169005256 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 509169005257 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 509169005258 catalytic residue [active] 509169005259 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 509169005260 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 509169005261 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 509169005262 ligand binding site [chemical binding]; other site 509169005263 flexible hinge region; other site 509169005264 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 509169005265 non-specific DNA interactions [nucleotide binding]; other site 509169005266 DNA binding site [nucleotide binding] 509169005267 sequence specific DNA binding site [nucleotide binding]; other site 509169005268 putative cAMP binding site [chemical binding]; other site 509169005269 histidyl-tRNA synthetase; Region: hisS; TIGR00442 509169005270 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 509169005271 dimer interface [polypeptide binding]; other site 509169005272 motif 1; other site 509169005273 active site 509169005274 motif 2; other site 509169005275 motif 3; other site 509169005276 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 509169005277 anticodon binding site; other site 509169005278 Trp repressor protein; Region: Trp_repressor; cl01121 509169005279 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 509169005280 ATP phosphoribosyltransferase; Region: HisG; cl15266 509169005281 HisG, C-terminal domain; Region: HisG_C; cl06867 509169005282 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 509169005283 histidinol dehydrogenase; Region: hisD; TIGR00069 509169005284 NAD binding site [chemical binding]; other site 509169005285 dimerization interface [polypeptide binding]; other site 509169005286 product binding site; other site 509169005287 substrate binding site [chemical binding]; other site 509169005288 zinc binding site [ion binding]; other site 509169005289 catalytic residues [active] 509169005290 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 509169005291 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 509169005292 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169005293 homodimer interface [polypeptide binding]; other site 509169005294 catalytic residue [active] 509169005295 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 509169005296 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 509169005297 active site 509169005298 motif I; other site 509169005299 motif II; other site 509169005300 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 509169005301 putative active site pocket [active] 509169005302 4-fold oligomerization interface [polypeptide binding]; other site 509169005303 metal binding residues [ion binding]; metal-binding site 509169005304 3-fold/trimer interface [polypeptide binding]; other site 509169005305 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 509169005306 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 509169005307 putative active site [active] 509169005308 oxyanion strand; other site 509169005309 catalytic triad [active] 509169005310 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 509169005311 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 509169005312 catalytic residues [active] 509169005313 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 509169005314 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 509169005315 substrate binding site [chemical binding]; other site 509169005316 glutamase interaction surface [polypeptide binding]; other site 509169005317 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 509169005318 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 509169005319 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 509169005320 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 509169005321 active site 509169005322 metal binding site [ion binding]; metal-binding site 509169005323 Peptidase C13 family; Region: Peptidase_C13; cl02159 509169005324 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 509169005325 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 509169005326 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 509169005327 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 509169005328 intersubunit interface [polypeptide binding]; other site 509169005329 active site 509169005330 Zn2+ binding site [ion binding]; other site 509169005331 Amino acid permease; Region: AA_permease; cl00524 509169005332 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 509169005333 Amino acid permease; Region: AA_permease; cl00524 509169005334 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. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 509169005335 nudix motif; other site 509169005336 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 509169005337 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169005338 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 509169005339 L-serine binding site [chemical binding]; other site 509169005340 ACT domain interface; other site 509169005341 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 509169005342 FAD binding domain; Region: FAD_binding_4; pfam01565 509169005343 Protein of unknown function (DUF2388); Region: DUF2388; cl09731 509169005345 elongation factor P; Provisional; Region: PRK04542 509169005346 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 509169005347 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 509169005348 RNA binding site [nucleotide binding]; other site 509169005349 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 509169005350 RNA binding site [nucleotide binding]; other site 509169005351 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169005352 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 509169005353 NAD(P) binding site [chemical binding]; other site 509169005354 active site 509169005355 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 509169005356 active site 509169005357 catalytic residues [active] 509169005358 metal binding site [ion binding]; metal-binding site 509169005359 enoyl-CoA hydratase; Provisional; Region: PRK05995 509169005360 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 509169005361 substrate binding site [chemical binding]; other site 509169005362 oxyanion hole (OAH) forming residues; other site 509169005363 trimer interface [polypeptide binding]; other site 509169005364 FeoA domain; Region: FeoA; cl00838 509169005365 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 509169005366 G1 box; other site 509169005367 GTP/Mg2+ binding site [chemical binding]; other site 509169005368 Switch I region; other site 509169005369 G2 box; other site 509169005370 G3 box; other site 509169005371 Switch II region; other site 509169005372 G4 box; other site 509169005373 G5 box; other site 509169005374 Nucleoside recognition; Region: Gate; cl00486 509169005375 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 509169005376 Nucleoside recognition; Region: Gate; cl00486 509169005377 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 509169005378 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 509169005379 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169005380 homodimer interface [polypeptide binding]; other site 509169005381 catalytic residue [active] 509169005382 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 509169005383 MOSC domain; Region: MOSC; pfam03473 509169005384 3-alpha domain; Region: 3-alpha; pfam03475 509169005385 dihydrodipicolinate reductase; Provisional; Region: PRK00048 509169005386 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169005387 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 509169005388 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 509169005389 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 509169005390 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 509169005391 catalytic site [active] 509169005392 subunit interface [polypeptide binding]; other site 509169005393 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 509169005394 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 509169005395 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 509169005396 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 509169005397 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 509169005398 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 509169005399 IMP binding site; other site 509169005400 dimer interface [polypeptide binding]; other site 509169005401 interdomain contacts; other site 509169005402 partial ornithine binding site; other site 509169005403 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 509169005404 domain; Region: GreA_GreB_N; pfam03449 509169005405 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 509169005406 Sulfatase; Region: Sulfatase; cl10460 509169005407 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 509169005408 DHH family; Region: DHH; pfam01368 509169005409 DHHA1 domain; Region: DHHA1; pfam02272 509169005410 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 509169005411 OpgC protein; Region: OpgC_C; cl00792 509169005412 Acyltransferase family; Region: Acyl_transf_3; pfam01757 509169005413 OpgC protein; Region: OpgC_C; cl00792 509169005414 OpgC protein; Region: OpgC_C; cl00792 509169005415 OpgC protein; Region: OpgC_C; cl00792 509169005416 LytTr DNA-binding domain; Region: LytTR; cl04498 509169005417 peptide chain release factor 2; Provisional; Region: PRK08787 509169005418 RF-1 domain; Region: RF-1; cl02875 509169005419 RF-1 domain; Region: RF-1; cl02875 509169005420 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 509169005421 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 509169005422 dimer interface [polypeptide binding]; other site 509169005423 putative anticodon binding site; other site 509169005424 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 509169005425 motif 1; other site 509169005426 active site 509169005427 motif 2; other site 509169005428 motif 3; other site 509169005429 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 509169005430 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 509169005431 active site 509169005432 phosphorylation site [posttranslational modification] 509169005433 intermolecular recognition site; other site 509169005434 dimerization interface [polypeptide binding]; other site 509169005435 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 509169005436 Zn2+ binding site [ion binding]; other site 509169005437 Mg2+ binding site [ion binding]; other site 509169005438 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169005439 dimer interface [polypeptide binding]; other site 509169005440 phosphorylation site [posttranslational modification] 509169005441 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 509169005442 ATP binding site [chemical binding]; other site 509169005443 Mg2+ binding site [ion binding]; other site 509169005444 G-X-G motif; other site 509169005445 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 509169005446 active site 509169005447 phosphorylation site [posttranslational modification] 509169005448 intermolecular recognition site; other site 509169005449 dimerization interface [polypeptide binding]; other site 509169005450 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 509169005451 putative binding surface; other site 509169005452 active site 509169005453 enoyl-CoA hydratase; Validated; Region: PRK08788 509169005454 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 509169005455 substrate binding site [chemical binding]; other site 509169005456 oxyanion hole (OAH) forming residues; other site 509169005457 trimer interface [polypeptide binding]; other site 509169005458 putative long-chain fatty acyl CoA ligase; Provisional; Region: PRK08751 509169005459 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 509169005460 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 509169005461 aconitate hydratase; Validated; Region: PRK09277 509169005462 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 509169005463 substrate binding site [chemical binding]; other site 509169005464 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 509169005465 ligand binding site [chemical binding]; other site 509169005466 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 509169005467 substrate binding site [chemical binding]; other site 509169005468 SpoVT / AbrB like domain; Region: SpoVT_AbrB; cl00877 509169005469 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 509169005470 putative active site [active] 509169005471 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 509169005472 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 509169005473 substrate binding site [chemical binding]; other site 509169005474 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 509169005475 substrate binding site [chemical binding]; other site 509169005476 ligand binding site [chemical binding]; other site 509169005477 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 509169005478 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 509169005479 PAS domain S-box; Region: sensory_box; TIGR00229 509169005480 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 509169005481 putative active site [active] 509169005482 heme pocket [chemical binding]; other site 509169005483 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 509169005484 GAF domain; Region: GAF; cl00853 509169005485 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169005486 metal binding site [ion binding]; metal-binding site 509169005487 active site 509169005488 I-site; other site 509169005489 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 509169005490 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 509169005491 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 509169005492 active site 509169005493 phosphorylation site [posttranslational modification] 509169005494 intermolecular recognition site; other site 509169005495 dimerization interface [polypeptide binding]; other site 509169005496 CheB methylesterase; Region: CheB_methylest; pfam01339 509169005497 CheD chemotactic sensory transduction; Region: CheD; cl00810 509169005498 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 509169005499 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 509169005500 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 509169005501 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 509169005502 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 509169005503 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 509169005504 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 transmembrane...; Region: TarH; cl00144 509169005505 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 509169005506 putative CheA interaction surface; other site 509169005507 Flagellar regulator YcgR; Region: YcgR; pfam07317 509169005508 PilZ domain; Region: PilZ; cl01260 509169005509 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 509169005510 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 transmembrane...; Region: TarH; cl00144 509169005511 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 509169005512 dimerization interface [polypeptide binding]; other site 509169005513 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 509169005514 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 509169005515 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 509169005516 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 509169005517 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 transmembrane...; Region: TarH; cl00144 509169005518 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 509169005519 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 509169005520 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 509169005521 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 transmembrane...; Region: TarH; cl00144 509169005522 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 509169005523 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 509169005524 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 509169005525 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 transmembrane...; Region: TarH; cl00144 509169005526 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 509169005527 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 509169005528 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 509169005529 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 509169005530 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 transmembrane...; Region: TarH; cl00144 509169005531 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 509169005532 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 509169005533 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 509169005534 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 transmembrane...; Region: TarH; cl00144 509169005535 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 509169005536 dimerization interface [polypeptide binding]; other site 509169005537 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 transmembrane...; Region: TarH; cl00144 509169005538 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 transmembrane...; Region: TarH; cl00144 509169005539 Cache domain; Region: Cache_2; cl07034 509169005540 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 509169005541 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 509169005542 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 509169005543 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 transmembrane...; Region: TarH; cl00144 509169005544 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 509169005545 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 509169005546 putative binding surface; other site 509169005547 active site 509169005548 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 509169005549 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 509169005550 ATP binding site [chemical binding]; other site 509169005551 Mg2+ binding site [ion binding]; other site 509169005552 G-X-G motif; other site 509169005553 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 509169005554 Response regulator receiver domain; Region: Response_reg; pfam00072 509169005555 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 509169005556 active site 509169005557 phosphorylation site [posttranslational modification] 509169005558 intermolecular recognition site; other site 509169005559 dimerization interface [polypeptide binding]; other site 509169005560 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 509169005561 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 509169005562 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 509169005563 P-loop; other site 509169005564 Magnesium ion binding site [ion binding]; other site 509169005565 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 509169005566 Magnesium ion binding site [ion binding]; other site 509169005567 flagellar motor protein MotD; Reviewed; Region: PRK09038 509169005568 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 509169005569 ligand binding site [chemical binding]; other site 509169005570 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 509169005571 flagellar motor protein MotA; Validated; Region: PRK08124 509169005572 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 509169005573 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169005574 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169005575 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169005576 putative transposase OrfB; Reviewed; Region: PHA02517 509169005577 Integrase core domain; Region: rve; cl01316 509169005578 HSP20-like domain of unknown function (DUF1813); Region: DUF1813; cl07446 509169005579 HSP20-like domain of unknown function (DUF1813); Region: DUF1813; cl07446 509169005581 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169005582 putative transposase OrfB; Reviewed; Region: PHA02517 509169005583 Integrase core domain; Region: rve; cl01316 509169005585 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 509169005586 putative binding surface; other site 509169005587 active site 509169005588 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 509169005589 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 509169005590 ATP binding site [chemical binding]; other site 509169005591 Mg2+ binding site [ion binding]; other site 509169005592 G-X-G motif; other site 509169005593 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 509169005594 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 509169005595 Response regulator receiver domain; Region: Response_reg; pfam00072 509169005596 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 509169005597 active site 509169005598 phosphorylation site [posttranslational modification] 509169005599 intermolecular recognition site; other site 509169005600 dimerization interface [polypeptide binding]; other site 509169005601 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 509169005602 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 509169005603 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 509169005604 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 509169005605 DNA binding residues [nucleotide binding] 509169005606 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 509169005607 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 509169005608 flagellar biosynthesis regulator FlhF; Provisional; Region: PRK12727 509169005609 Pleiotropic Drug Resistance (PDR) Family protein; Region: 3a01205; TIGR00956 509169005610 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 509169005611 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169005612 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 509169005613 FHIPEP family; Region: FHIPEP; pfam00771 509169005614 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 509169005615 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 509169005616 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 509169005617 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 509169005618 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169005619 metal binding site [ion binding]; metal-binding site 509169005620 active site 509169005621 I-site; other site 509169005622 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 509169005623 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 509169005624 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 509169005625 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169005626 metal binding site [ion binding]; metal-binding site 509169005627 active site 509169005628 I-site; other site 509169005629 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 509169005630 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 509169005631 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169005632 metal binding site [ion binding]; metal-binding site 509169005633 active site 509169005634 I-site; other site 509169005635 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 509169005636 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 509169005637 FliP family; Region: FliP; cl00593 509169005638 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 509169005639 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 509169005640 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 509169005641 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 509169005642 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 509169005643 Flagellar FliJ protein; Region: FliJ; cl09161 509169005644 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 509169005645 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 509169005646 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169005647 Walker A motif; other site 509169005648 ATP binding site [chemical binding]; other site 509169005649 Walker B motif; other site 509169005650 Flagellar assembly protein FliH; Region: FliH; pfam02108 509169005651 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 509169005652 MgtE intracellular N domain; Region: MgtE_N; cl15244 509169005653 FliG C-terminal domain; Region: FliG_C; pfam01706 509169005654 flagellar MS-ring protein; Reviewed; Region: fliF; PRK12800 509169005655 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 509169005656 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 509169005657 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 509169005658 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 509169005659 active site 509169005660 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 509169005661 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 509169005662 Probable Catalytic site; other site 509169005663 metal-binding site 509169005664 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 509169005665 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169005666 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 509169005667 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 509169005668 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 509169005669 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 509169005670 inhibitor-cofactor binding pocket; inhibition site 509169005671 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169005672 catalytic residue [active] 509169005673 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 509169005674 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 509169005675 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 509169005676 Walker A motif; other site 509169005677 ATP binding site [chemical binding]; other site 509169005678 Walker B motif; other site 509169005679 arginine finger; other site 509169005680 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169005681 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 509169005682 active site 509169005683 phosphorylation site [posttranslational modification] 509169005684 intermolecular recognition site; other site 509169005685 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 509169005686 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 509169005687 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 509169005688 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 509169005689 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 509169005690 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 509169005691 active site 509169005692 phosphorylation site [posttranslational modification] 509169005693 intermolecular recognition site; other site 509169005694 dimerization interface [polypeptide binding]; other site 509169005695 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 509169005696 DNA binding residues [nucleotide binding] 509169005697 dimerization interface [polypeptide binding]; other site 509169005698 Flagellar protein FliS; Region: FliS; cl00654 509169005699 flagellar capping protein; Reviewed; Region: fliD; PRK08032 509169005700 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 509169005701 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 509169005702 flagellin; Reviewed; Region: PRK08869 509169005703 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 509169005704 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 509169005705 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 509169005706 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 509169005707 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 509169005708 flagellar hook-associated protein FlgK; Provisional; Region: flgK; PRK12714 509169005709 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 509169005710 flagellar rod assembly protein/muramidase FlgJ; Reviewed; Region: flgJ; PRK12711 509169005711 Rod binding protein; Region: Rod-binding; cl01626 509169005712 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 509169005713 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 509169005714 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 509169005715 Flagellar L-ring protein; Region: FlgH; cl00905 509169005716 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 509169005717 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 509169005718 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 509169005719 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 509169005720 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 509169005721 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 509169005722 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 509169005723 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 509169005724 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 509169005725 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 509169005726 Flagellar hook capping protein; Region: FlgD; cl04347 509169005727 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 509169005728 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12629 509169005729 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 509169005730 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 509169005731 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12620 509169005732 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 509169005733 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 509169005734 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 509169005735 active site 509169005736 phosphorylation site [posttranslational modification] 509169005737 intermolecular recognition site; other site 509169005738 dimerization interface [polypeptide binding]; other site 509169005739 SAF domain; Region: SAF; cl00555 509169005740 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 509169005741 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 509169005742 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 509169005743 dimer interface [polypeptide binding]; other site 509169005744 phosphorylation site [posttranslational modification] 509169005745 Mediator complex subunit 30; Region: Med30; pfam11315 509169005746 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 509169005747 ATP binding site [chemical binding]; other site 509169005748 Mg2+ binding site [ion binding]; other site 509169005749 G-X-G motif; other site 509169005750 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169005751 metal binding site [ion binding]; metal-binding site 509169005752 active site 509169005753 I-site; other site 509169005754 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 509169005755 Response regulator receiver domain; Region: Response_reg; pfam00072 509169005756 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 509169005757 active site 509169005758 phosphorylation site [posttranslational modification] 509169005759 intermolecular recognition site; other site 509169005760 dimerization interface [polypeptide binding]; other site 509169005761 PAS fold; Region: PAS; pfam00989 509169005762 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 509169005763 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 509169005764 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 509169005765 putative active site [active] 509169005766 heme pocket [chemical binding]; other site 509169005767 Histidine kinase; Region: HisKA_3; pfam07730 509169005768 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 509169005769 ATP binding site [chemical binding]; other site 509169005770 Mg2+ binding site [ion binding]; other site 509169005771 G-X-G motif; other site 509169005772 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 509169005773 PAS fold; Region: PAS_3; pfam08447 509169005774 putative active site [active] 509169005775 heme pocket [chemical binding]; other site 509169005776 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 509169005777 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169005778 metal binding site [ion binding]; metal-binding site 509169005779 active site 509169005780 I-site; other site 509169005781 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 509169005782 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 509169005783 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 transmembrane...; Region: TarH; cl00144 509169005784 Protein of unknown function (DUF489); Region: DUF489; cl01097 509169005785 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 509169005786 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 509169005787 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 509169005788 nudix motif; other site 509169005789 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 509169005790 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 509169005791 Clp amino terminal domain; Region: Clp_N; pfam02861 509169005792 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 509169005793 Walker A motif; other site 509169005794 ATP binding site [chemical binding]; other site 509169005795 Walker B motif; other site 509169005796 arginine finger; other site 509169005797 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 509169005798 Walker A motif; other site 509169005799 ATP binding site [chemical binding]; other site 509169005800 Walker B motif; other site 509169005801 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 509169005802 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 509169005803 rRNA binding site [nucleotide binding]; other site 509169005804 predicted 30S ribosome binding site; other site 509169005805 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl01006 509169005806 FemAB family; Region: FemAB; cl11444 509169005807 Protein of unknown function, DUF482; Region: DUF482; pfam04339 509169005808 thioredoxin reductase; Provisional; Region: PRK10262 509169005809 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169005810 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169005811 DNA translocase FtsK; Provisional; Region: PRK10263 509169005812 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169005813 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 509169005814 Domain of Unknown Function with PDB structure; Region: DUF3857; pfam12969 509169005815 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 509169005816 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 509169005817 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 509169005818 recombination factor protein RarA; Reviewed; Region: PRK13342 509169005819 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 509169005820 Walker A motif; other site 509169005821 ATP binding site [chemical binding]; other site 509169005822 Walker B motif; other site 509169005823 arginine finger; other site 509169005824 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 509169005825 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 509169005826 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 509169005827 putative Cl- selectivity filter; other site 509169005828 putative pore gating glutamate residue; other site 509169005829 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 509169005830 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 509169005831 dimer interface [polypeptide binding]; other site 509169005832 active site 509169005833 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 509169005834 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 509169005835 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 509169005836 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 509169005837 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 509169005838 substrate binding site [chemical binding]; other site 509169005839 oxyanion hole (OAH) forming residues; other site 509169005840 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 509169005841 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169005842 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 509169005843 active site 509169005844 multimer interface [polypeptide binding]; other site 509169005845 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 509169005846 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 509169005847 FeS/SAM binding site; other site 509169005848 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 509169005849 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 509169005850 binding surface 509169005851 TPR motif; other site 509169005852 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 509169005853 binding surface 509169005854 TPR motif; other site 509169005855 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 509169005856 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169005857 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 509169005858 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 509169005859 binding surface 509169005860 TPR motif; other site 509169005861 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 509169005862 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 509169005863 Trp docking motif [polypeptide binding]; other site 509169005864 GTP-binding protein Der; Reviewed; Region: PRK00093 509169005865 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 an...; Region: EngA1; cd01894 509169005866 G1 box; other site 509169005867 GTP/Mg2+ binding site [chemical binding]; other site 509169005868 Switch I region; other site 509169005869 G2 box; other site 509169005870 Switch II region; other site 509169005871 G3 box; other site 509169005872 G4 box; other site 509169005873 G5 box; other site 509169005874 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 an...; Region: EngA2; cd01895 509169005875 G1 box; other site 509169005876 GTP/Mg2+ binding site [chemical binding]; other site 509169005877 Switch I region; other site 509169005878 G2 box; other site 509169005879 G3 box; other site 509169005880 Switch II region; other site 509169005881 G4 box; other site 509169005882 G5 box; other site 509169005883 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 509169005884 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 509169005885 dimer interface [polypeptide binding]; other site 509169005886 putative functional site; other site 509169005887 putative MPT binding site; other site 509169005888 molybdopterin biosynthesis protein MoeB; Validated; Region: PRK08762 509169005889 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 509169005890 active site residue [active] 509169005891 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 509169005892 ATP binding site [chemical binding]; other site 509169005893 substrate interface [chemical binding]; other site 509169005894 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 509169005895 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169005896 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169005897 short chain dehydrogenase; Provisional; Region: PRK06181 509169005898 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 509169005899 putative NAD(P) binding site [chemical binding]; other site 509169005900 active site 509169005901 Cytochrome P450; Region: p450; cl12078 509169005902 Predicted outer membrane protein [Function unknown]; Region: COG3652 509169005903 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 509169005904 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 509169005905 NAD binding site [chemical binding]; other site 509169005906 catalytic Zn binding site [ion binding]; other site 509169005907 structural Zn binding site [ion binding]; other site 509169005908 Protein of unknown function (DUF1264); Region: DUF1264; pfam06884 509169005909 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 509169005910 putative phosphate binding site [ion binding]; other site 509169005911 putative catalytic site [active] 509169005912 active site 509169005913 metal binding site A [ion binding]; metal-binding site 509169005914 DNA binding site [nucleotide binding] 509169005915 putative AP binding site [nucleotide binding]; other site 509169005916 putative metal binding site B [ion binding]; other site 509169005917 PQ loop repeat; Region: PQ-loop; cl12056 509169005918 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 509169005919 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 509169005920 dimer interface [polypeptide binding]; other site 509169005921 putative functional site; other site 509169005922 putative MPT binding site; other site 509169005923 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 509169005924 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 509169005925 GTP binding site; other site 509169005926 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169005927 siroheme synthase, N-terminal domain; Region: cysG_Nterm; TIGR01470 509169005928 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 509169005929 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 509169005930 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 509169005931 ANTAR domain; Region: ANTAR; cl04297 509169005932 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 509169005933 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 509169005934 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169005935 putative substrate translocation pore; other site 509169005936 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 509169005937 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169005938 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 509169005939 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 509169005940 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 509169005941 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 509169005942 [2Fe-2S] cluster binding site [ion binding]; other site 509169005943 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 509169005944 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 509169005945 [4Fe-4S] binding site [ion binding]; other site 509169005946 molybdopterin cofactor binding site; other site 509169005947 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 509169005948 molybdopterin cofactor binding site; other site 509169005949 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 509169005950 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 509169005951 OpgC protein; Region: OpgC_C; cl00792 509169005952 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 509169005953 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169005954 SAF domain; Region: SAF; cl00555 509169005955 Cupin domain; Region: Cupin_2; cl09118 509169005956 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 509169005957 extended (e) SDRs; Region: SDR_e; cd08946 509169005958 NAD(P) binding site [chemical binding]; other site 509169005959 active site 509169005960 substrate binding site [chemical binding]; other site 509169005961 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 509169005962 substrate binding site; other site 509169005963 FAD dependent oxidoreductase; Region: DAO; pfam01266 509169005964 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169005965 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 509169005966 dinuclear metal binding motif [ion binding]; other site 509169005967 CheB methylesterase; Region: CheB_methylest; pfam01339 509169005968 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 509169005969 putative active site [active] 509169005970 Zn binding site [ion binding]; other site 509169005971 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 509169005972 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 509169005973 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 509169005974 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 509169005975 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 509169005976 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 509169005977 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 509169005978 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 509169005979 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 509169005980 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 509169005981 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 509169005982 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 509169005983 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 509169005984 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 509169005985 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 509169005986 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 509169005987 Autotransporter beta-domain; Region: Autotransporter; cl02365 509169005988 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 509169005989 putative active site [active] 509169005990 catalytic triad [active] 509169005991 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 509169005992 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 509169005993 Autotransporter beta-domain; Region: Autotransporter; cl02365 509169005994 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169005997 beta-N-acetylglucosaminidase; Region: NAGidase; pfam07555 509169005998 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 509169005999 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 509169006000 GAF domain; Region: GAF; cl00853 509169006001 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169006002 dimer interface [polypeptide binding]; other site 509169006003 phosphorylation site [posttranslational modification] 509169006004 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 509169006005 ATP binding site [chemical binding]; other site 509169006006 Mg2+ binding site [ion binding]; other site 509169006007 G-X-G motif; other site 509169006008 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 509169006009 Membrane bound L-sorbosone dehydrogenase; Region: SNDH; pfam12303 509169006010 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 509169006011 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 509169006012 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169006013 Staphylococcal nuclease homologues; Region: SNc; smart00318 509169006014 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 509169006015 Catalytic site; other site 509169006016 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 509169006017 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 509169006018 active site 509169006019 Zn binding site [ion binding]; other site 509169006020 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169006021 NAD(P) binding site [chemical binding]; other site 509169006022 active site 509169006023 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 509169006024 Cu(I) binding site [ion binding]; other site 509169006025 Protein of unknown function (DUF461); Region: DUF461; cl01071 509169006026 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169006027 putative substrate translocation pore; other site 509169006028 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 509169006029 dimerization interface [polypeptide binding]; other site 509169006030 putative DNA binding site [nucleotide binding]; other site 509169006031 putative Zn2+ binding site [ion binding]; other site 509169006032 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 509169006033 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 509169006034 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 509169006035 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 509169006036 N-terminal plug; other site 509169006037 ligand-binding site [chemical binding]; other site 509169006038 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 509169006039 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 509169006040 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 transmembrane...; Region: TarH; cl00144 509169006041 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 509169006042 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 509169006043 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 509169006044 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 509169006045 metal binding site [ion binding]; metal-binding site 509169006046 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 509169006048 CHASE3 domain; Region: CHASE3; cl05000 509169006049 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 509169006050 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 509169006051 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 transmembrane...; Region: TarH; cl00144 509169006052 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 509169006053 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 509169006054 active site 509169006055 phosphorylation site [posttranslational modification] 509169006056 intermolecular recognition site; other site 509169006057 dimerization interface [polypeptide binding]; other site 509169006058 PAS fold; Region: PAS_4; pfam08448 509169006059 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 509169006060 putative active site [active] 509169006061 heme pocket [chemical binding]; other site 509169006062 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169006063 dimer interface [polypeptide binding]; other site 509169006064 phosphorylation site [posttranslational modification] 509169006065 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 509169006066 ATP binding site [chemical binding]; other site 509169006067 Mg2+ binding site [ion binding]; other site 509169006068 G-X-G motif; other site 509169006069 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]; Region: COG3947 509169006070 LytTr DNA-binding domain; Region: LytTR; cl04498 509169006071 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 509169006072 Histidine kinase; Region: His_kinase; pfam06580 509169006073 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 509169006074 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 triad...; Region: Tryp_SPc; cl00149 509169006075 active site 509169006076 substrate binding sites [chemical binding]; other site 509169006077 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 509169006078 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 509169006079 DNA binding site [nucleotide binding] 509169006080 dimer interface [polypeptide binding]; other site 509169006081 Int/Topo IB signature motif; other site 509169006082 active site 509169006083 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 509169006084 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_2; pfam12729 509169006085 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 509169006086 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 509169006087 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 transmembrane...; Region: TarH; cl00144 509169006088 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169006089 Phage protein; Region: DUF3653; pfam12375 509169006090 TraX protein; Region: TraX; cl05434 509169006091 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 509169006092 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 509169006093 NifU-like domain; Region: NifU; cl00484 509169006094 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 509169006095 aromatic arch; other site 509169006096 DCoH dimer interaction site [polypeptide binding]; other site 509169006097 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 509169006098 DCoH tetramer interaction site [polypeptide binding]; other site 509169006099 substrate binding site [chemical binding]; other site 509169006100 Gram-negative bacterial tonB protein; Region: TonB; cl10048 509169006101 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 509169006102 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 509169006103 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 509169006104 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 and...; Region: PseudoU_synth_RluCD_like; cd02869 509169006105 active site 509169006106 ribonuclease E; Reviewed; Region: rne; PRK10811 509169006107 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 509169006108 homodimer interface [polypeptide binding]; other site 509169006109 oligonucleotide binding site [chemical binding]; other site 509169006110 response regulator; Provisional; Region: PRK09483 509169006111 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 509169006112 active site 509169006113 phosphorylation site [posttranslational modification] 509169006114 intermolecular recognition site; other site 509169006115 dimerization interface [polypeptide binding]; other site 509169006116 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 509169006117 DNA binding residues [nucleotide binding] 509169006118 dimerization interface [polypeptide binding]; other site 509169006119 rhodanese superfamily protein; Provisional; Region: PRK05320 509169006120 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 509169006121 active site residue [active] 509169006122 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 509169006123 flavoprotein, HI0933 family; Region: TIGR00275 509169006124 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169006125 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 509169006126 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 509169006127 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169006129 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 509169006130 Integrase core domain; Region: rve; cl01316 509169006131 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169006132 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 509169006133 T5orf172 domain; Region: T5orf172; cl11176 509169006134 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 509169006135 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 509169006136 ATP binding site [chemical binding]; other site 509169006137 putative Mg++ binding site [ion binding]; other site 509169006138 Pseudomurein-binding repeat; Region: PMBR; pfam09373 509169006139 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 509169006140 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169006141 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 509169006142 Integrase core domain; Region: rve; cl01316 509169006143 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 509169006144 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 509169006145 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 509169006146 Magnesium ion binding site [ion binding]; other site 509169006147 integrating conjugative element, PFGI_1 class, ParB family protein; Region: ICE_PFGI_1_parB; TIGR03764 509169006148 ParB-like nuclease domain; Region: ParBc; cl02129 509169006149 Protein of unknown function (DUF2857); Region: DUF2857; pfam11198 509169006150 Domain of unknown function (DUF1845); Region: DUF1845; cl07481 509169006151 Protein of unknown function (DUF3158); Region: DUF3158; pfam11358 509169006152 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 509169006153 ssDNA binding site [nucleotide binding]; other site 509169006154 dimer interface [polypeptide binding]; other site 509169006155 tetramer (dimer of dimers) interface [polypeptide binding]; other site 509169006156 DNA topoisomerase III; Provisional; Region: PRK07726 509169006157 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 509169006158 active site 509169006159 putative interdomain interaction site [polypeptide binding]; other site 509169006160 putative metal-binding site [ion binding]; other site 509169006161 putative nucleotide binding site [chemical binding]; other site 509169006162 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 509169006163 domain I; other site 509169006164 DNA binding groove [nucleotide binding] 509169006165 phosphate binding site [ion binding]; other site 509169006166 domain II; other site 509169006167 domain III; other site 509169006168 nucleotide binding site [chemical binding]; other site 509169006169 catalytic site [active] 509169006170 domain IV; other site 509169006171 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 509169006172 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 509169006173 cofactor binding site; other site 509169006174 DNA binding site [nucleotide binding] 509169006175 substrate interaction site [chemical binding]; other site 509169006176 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169006177 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 509169006178 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 509169006179 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 509169006180 inhibitor-cofactor binding pocket; inhibition site 509169006181 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169006182 catalytic residue [active] 509169006183 Stf0 sulphotransferase; Region: Sulphotransf; cl01835 509169006184 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 509169006185 active site 509169006186 iron coordination sites [ion binding]; other site 509169006187 substrate binding pocket [chemical binding]; other site 509169006188 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 509169006189 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 509169006190 putative transposase OrfB; Reviewed; Region: PHA02517 509169006191 Integrase core domain; Region: rve; cl01316 509169006192 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169006193 IS2 transposase TnpB; Reviewed; Region: PRK09409 509169006194 Integrase core domain; Region: rve; cl01316 509169006195 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169006196 Transposase domain (DUF772); Region: DUF772; cl12084 509169006197 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 509169006198 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 509169006199 Protein of unknown function (DUF3577); Region: DUF3577; pfam12101 509169006200 Protein of unknown function (DUF3275); Region: DUF3275; pfam11679 509169006201 DEAD-like helicases superfamily; Region: DEXDc; smart00487 509169006202 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 509169006203 nucleotide binding region [chemical binding]; other site 509169006204 ATP-binding site [chemical binding]; other site 509169006205 Transposase domain (DUF772); Region: DUF772; cl12084 509169006206 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 509169006207 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169006208 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 509169006209 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169006210 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 509169006211 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169006212 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 509169006213 putative active site [active] 509169006214 putative metal-binding site [ion binding]; other site 509169006215 conjugative transfer region protein, TIGR03748 family; Region: conj_PilL 509169006216 integrating conjugative element protein, PFL_4693 family; Region: conj_TIGR03759 509169006217 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 509169006218 Protein of unknown function (DUF2859); Region: DUF2859; cl12633 509169006219 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 509169006220 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl14888 509169006221 integrating conjugative element membrane protein, PFL_4697 family; Region: conj_TIGR03747 509169006222 integrative conjugative element protein, RAQPRD family; Region: ICE_RAQPRD; TIGR01690 509169006223 Plasmid protein of unknown function (Plasmid_RAQPRD); Region: Plasmid_RAQPRD; pfam09686 509169006224 Protein of unknown function (DUF3262); Region: DUF3262; cl13160 509169006225 Protein of unknown function (DUF2976); Region: DUF2976; cl12739 509169006226 Protein of unknown function (DUF3487); Region: DUF3487; cl13432 509169006227 Protein of unknown function (DUF2895); Region: DUF2895; cl12968 509169006228 Protein of unknown function (DUF3438); Region: DUF3438; cl13372 509169006229 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 509169006230 conjugative transfer region lipoprotein, TIGR03751 family; Region: conj_TIGR03751 509169006231 conjugative transfer ATPase, PFL_4706 family; Region: traC_PFL_4706; TIGR03744 509169006232 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 509169006233 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169006234 Walker A motif; other site 509169006235 ATP binding site [chemical binding]; other site 509169006236 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 509169006237 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 509169006238 catalytic residues [active] 509169006239 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 509169006240 MPN+ (JAMM) motif; other site 509169006241 Zinc-binding site [ion binding]; other site 509169006242 Protein of unknown function (DUF1525); Region: DUF1525; cl06515 509169006243 TraU protein; Region: TraU; cl06067 509169006244 integrating conjugative element protein, PFL_4711 family; Region: conj_TIGR03755 509169006245 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 509169006246 Protein of unknown function (DUF3742); Region: DUF3742; pfam12553 509169006247 RES domain; Region: RES; cl02411 509169006248 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 509169006249 Putative helicase; Region: TraI_2; pfam07514 509169006250 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 509169006251 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 509169006252 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 509169006253 Lipase. 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 becoming...; Region: Lipase; cl14883 509169006254 nucleophilic elbow; other site 509169006255 catalytic triad; other site 509169006256 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169006257 putative transposase OrfB; Reviewed; Region: PHA02517 509169006258 Integrase core domain; Region: rve; cl01316 509169006259 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 509169006260 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 509169006261 binding surface 509169006262 TPR motif; other site 509169006263 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 509169006264 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 509169006265 tetrameric interface [polypeptide binding]; other site 509169006266 NAD binding site [chemical binding]; other site 509169006267 catalytic residues [active] 509169006268 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 509169006269 S-adenosylmethionine binding site [chemical binding]; other site 509169006270 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 509169006271 quinone interaction residues [chemical binding]; other site 509169006272 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 509169006273 active site 509169006274 catalytic residues [active] 509169006275 FMN binding site [chemical binding]; other site 509169006276 substrate binding site [chemical binding]; other site 509169006277 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 509169006278 FAD binding domain; Region: FAD_binding_4; pfam01565 509169006279 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 509169006280 EamA-like transporter family; Region: EamA; cl01037 509169006281 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 509169006282 EamA-like transporter family; Region: EamA; cl01037 509169006283 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 509169006284 aspartate racemase; Region: asp_race; TIGR00035 509169006285 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169006286 metabolite-proton symporter; Region: 2A0106; TIGR00883 509169006287 putative substrate translocation pore; other site 509169006288 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 509169006289 active site 509169006290 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 509169006291 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694; cl15446 509169006292 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 509169006293 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 509169006294 ATP binding site [chemical binding]; other site 509169006295 Mg2+ binding site [ion binding]; other site 509169006296 G-X-G motif; other site 509169006297 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 509169006298 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 509169006299 active site 509169006300 phosphorylation site [posttranslational modification] 509169006301 intermolecular recognition site; other site 509169006302 dimerization interface [polypeptide binding]; other site 509169006303 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169006304 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 509169006305 GAF domain; Region: GAF; cl00853 509169006306 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 509169006307 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 509169006308 putative transporter; Provisional; Region: PRK10484 509169006309 Sodium:solute symporter family; Region: SSF; cl00456 509169006310 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 509169006311 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 509169006312 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 509169006313 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 509169006314 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169006315 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 509169006316 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 509169006317 active site 509169006318 dimer interface [polypeptide binding]; other site 509169006319 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 509169006320 dimer interface [polypeptide binding]; other site 509169006321 active site 509169006322 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 509169006323 tetramerization interface [polypeptide binding]; other site 509169006324 active site 509169006325 Pantoate-beta-alanine ligase; Region: PanC; cd00560 509169006326 pantoate--beta-alanine ligase; Reviewed; Region: panC; PRK00380 509169006327 active site 509169006328 ATP-binding site [chemical binding]; other site 509169006329 pantoate-binding site; other site 509169006330 HXXH motif; other site 509169006331 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 509169006332 oligomerization interface [polypeptide binding]; other site 509169006333 active site 509169006334 metal binding site [ion binding]; metal-binding site 509169006335 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 509169006336 catalytic center binding site [active] 509169006337 ATP binding site [chemical binding]; other site 509169006338 poly(A) polymerase; Region: pcnB; TIGR01942 509169006339 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 509169006340 active site 509169006341 NTP binding site [chemical binding]; other site 509169006342 metal binding triad [ion binding]; metal-binding site 509169006343 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 509169006344 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 509169006345 Uncharacterized ACR, COG1469; Region: DUF198; cl00642 509169006346 Localisation of periplasmic protein complexes; Region: AMIN; pfam11741 509169006347 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 509169006348 active site 509169006349 metal binding site [ion binding]; metal-binding site 509169006350 MASE1; Region: MASE1; pfam05231 509169006351 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 509169006352 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169006353 putative substrate translocation pore; other site 509169006354 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169006355 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 509169006356 D-xylulose kinases, subgroup 1; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 509169006357 N- and C-terminal domain interface [polypeptide binding]; other site 509169006358 D-xylulose kinase; Region: XylB; TIGR01312 509169006359 active site 509169006360 catalytic site [active] 509169006361 metal binding site [ion binding]; metal-binding site 509169006362 xylulose binding site [chemical binding]; other site 509169006363 ATP binding site [chemical binding]; other site 509169006364 putative homodimer interface [polypeptide binding]; other site 509169006365 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 509169006366 PA14 domain; Region: PA14; cl08459 509169006367 XylS is a glycosyl hydrolase family 31 (GH31) alpha-xylosidase found in prokaryotes, eukaryotes, and archaea, that catalyzes the release of alpha-xylose from the non-reducing terminal side of the alpha-xyloside substrate. XylS has been characterized in...; Region: GH31_xylosidase_XylS; cd06591 509169006368 putative active site [active] 509169006369 putative catalytic site [active] 509169006370 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 509169006371 Domain of unknown function (DUF303); Region: DUF303; pfam03629 509169006372 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 509169006373 Domain of unknown function (DUF303); Region: DUF303; pfam03629 509169006374 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 509169006375 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169006376 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 509169006377 ligand-binding site [chemical binding]; other site 509169006378 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 509169006379 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169006380 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169006381 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 509169006382 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169006383 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 509169006384 putative dimerization interface [polypeptide binding]; other site 509169006385 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 509169006386 active site 509169006387 intersubunit interface [polypeptide binding]; other site 509169006388 catalytic residue [active] 509169006389 galactonate dehydratase; Provisional; Region: PRK14017 509169006390 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 509169006391 putative active site pocket [active] 509169006392 putative metal binding site [ion binding]; other site 509169006393 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 509169006394 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 509169006395 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 509169006396 Ferredoxin [Energy production and conversion]; Region: COG1146 509169006397 4Fe-4S binding domain; Region: Fer4; cl02805 509169006398 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 509169006399 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 509169006400 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 509169006401 dimer interface [polypeptide binding]; other site 509169006402 active site 509169006403 catalytic residue [active] 509169006404 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 509169006405 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 509169006406 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 509169006407 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 509169006408 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 509169006409 catalytic triad [active] 509169006410 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 509169006411 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 509169006412 putative active site [active] 509169006413 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169006414 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 509169006415 dimer interface [polypeptide binding]; other site 509169006416 substrate binding site [chemical binding]; other site 509169006417 ATP binding site [chemical binding]; other site 509169006418 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 509169006419 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 509169006420 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 509169006421 active site residue [active] 509169006422 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169006423 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 509169006424 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 509169006425 dimerization interface [polypeptide binding]; other site 509169006426 Pirin-related protein [General function prediction only]; Region: COG1741 509169006427 Cupin domain; Region: Cupin_2; cl09118 509169006428 PAS fold; Region: PAS_4; pfam08448 509169006429 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 509169006430 putative active site [active] 509169006431 heme pocket [chemical binding]; other site 509169006432 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 509169006433 PAS fold; Region: PAS_3; pfam08447 509169006434 putative active site [active] 509169006435 heme pocket [chemical binding]; other site 509169006436 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 509169006437 PAS fold; Region: PAS_3; pfam08447 509169006438 putative active site [active] 509169006439 heme pocket [chemical binding]; other site 509169006440 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 509169006441 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 transmembrane...; Region: TarH; cl00144 509169006442 Global regulator protein family; Region: CsrA; cl00670 509169006443 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 509169006444 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 of...; Region: AlaRS_core; cd00673 509169006445 motif 1; other site 509169006446 active site 509169006447 motif 2; other site 509169006448 motif 3; other site 509169006449 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 509169006450 DHHA1 domain; Region: DHHA1; pfam02272 509169006451 RecX family; Region: RecX; cl00936 509169006452 recombinase A; Provisional; Region: recA; PRK09354 509169006453 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 509169006454 hexamer interface [polypeptide binding]; other site 509169006455 Walker A motif; other site 509169006456 ATP binding site [chemical binding]; other site 509169006457 Walker B motif; other site 509169006458 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169006459 LexA repressor; Validated; Region: PRK00215 509169006460 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 509169006461 Catalytic site [active] 509169006462 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 509169006463 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 509169006464 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 509169006465 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169006466 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169006467 Competence-damaged protein; Region: CinA; cl00666 509169006468 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 509169006469 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 509169006470 G1 box; other site 509169006471 GTP/Mg2+ binding site [chemical binding]; other site 509169006472 Switch I region; other site 509169006473 G2 box; other site 509169006474 G3 box; other site 509169006475 Switch II region; other site 509169006476 G4 box; other site 509169006477 G5 box; other site 509169006478 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 509169006479 Sm1 motif; other site 509169006480 intra - hexamer interaction site; other site 509169006481 inter - hexamer interaction site [polypeptide binding]; other site 509169006482 nucleotide binding pocket [chemical binding]; other site 509169006483 Sm2 motif; other site 509169006484 IPP transferase; Region: IPPT; cl00403 509169006485 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 509169006486 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 509169006487 dihydropteroate synthase; Region: DHPS; TIGR01496 509169006488 substrate binding pocket [chemical binding]; other site 509169006489 dimer interface [polypeptide binding]; other site 509169006490 inhibitor binding site; inhibition site 509169006491 FtsH Extracellular; Region: FtsH_ext; pfam06480 509169006492 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 509169006493 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 509169006494 Walker A motif; other site 509169006495 ATP binding site [chemical binding]; other site 509169006496 Walker B motif; other site 509169006497 arginine finger; other site 509169006498 Peptidase family M41; Region: Peptidase_M41; pfam01434 509169006499 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 509169006500 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 509169006501 S-adenosylmethionine binding site [chemical binding]; other site 509169006502 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 509169006503 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 509169006504 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 509169006505 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 509169006506 putative peptidoglycan binding site; other site 509169006507 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 509169006508 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 509169006509 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 509169006510 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 509169006511 Survival protein SurE; Region: SurE; cl00448 509169006512 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 509169006513 Smr domain; Region: Smr; cl02619 509169006514 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 509169006515 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 509169006516 Permutation of conserved domain; other site 509169006517 active site 509169006518 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 509169006519 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 509169006520 homotrimer interaction site [polypeptide binding]; other site 509169006521 zinc binding site [ion binding]; other site 509169006522 CDP-binding sites; other site 509169006523 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 509169006524 substrate binding site; other site 509169006525 dimer interface; other site 509169006526 Septum formation initiator; Region: DivIC; cl11433 509169006527 enolase; Provisional; Region: eno; PRK00077 509169006528 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 509169006529 dimer interface [polypeptide binding]; other site 509169006530 metal binding site [ion binding]; metal-binding site 509169006531 substrate binding pocket [chemical binding]; other site 509169006532 NeuB family; Region: NeuB; cl00496 509169006533 CTP synthetase; Validated; Region: pyrG; PRK05380 509169006534 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 509169006535 Catalytic site [active] 509169006536 active site 509169006537 UTP binding site [chemical binding]; other site 509169006538 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 509169006539 active site 509169006540 putative oxyanion hole; other site 509169006541 catalytic triad [active] 509169006542 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 509169006543 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 509169006544 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 509169006545 anchoring element; other site 509169006546 dimer interface [polypeptide binding]; other site 509169006547 ATP binding site [chemical binding]; other site 509169006548 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 509169006549 active site 509169006550 metal binding site [ion binding]; metal-binding site 509169006551 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 509169006552 CDP-diacylglycerol pyrophosphatase; Region: CDH; cl00934 509169006553 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 509169006554 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 509169006555 putative active site [active] 509169006556 Phosphate transporter family; Region: PHO4; cl00396 509169006557 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 509169006558 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 509169006559 Domain of unknown function DUF21; Region: DUF21; pfam01595 509169006560 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 509169006561 Transporter associated domain; Region: CorC_HlyC; cl08393 509169006562 Exopolysaccharide synthesis, ExoD; Region: ExoD; cl01617 509169006563 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 509169006564 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 509169006565 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 509169006566 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 509169006567 benzoate transport; Region: 2A0115; TIGR00895 509169006568 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169006569 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169006570 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 509169006571 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169006572 Walker A/P-loop; other site 509169006573 ATP binding site [chemical binding]; other site 509169006574 Q-loop/lid; other site 509169006575 ABC transporter signature motif; other site 509169006576 Walker B; other site 509169006577 D-loop; other site 509169006578 H-loop/switch region; other site 509169006579 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 509169006580 Hpr binding site; other site 509169006581 active site 509169006582 homohexamer subunit interaction site [polypeptide binding]; other site 509169006583 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 509169006584 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 509169006585 B12 binding site [chemical binding]; other site 509169006586 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 509169006587 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 509169006588 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 509169006589 S-adenosylmethionine binding site [chemical binding]; other site 509169006590 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 509169006591 active site 509169006592 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 509169006593 S-adenosylmethionine binding site [chemical binding]; other site 509169006594 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 509169006595 active site 509169006596 MatE; Region: MatE; cl10513 509169006597 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 509169006598 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 509169006599 inhibitor-cofactor binding pocket; inhibition site 509169006600 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169006601 catalytic residue [active] 509169006602 Cupin domain; Region: Cupin_2; cl09118 509169006603 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 509169006604 Cytochrome c; Region: Cytochrom_C; cl11414 509169006605 RNA polymerase sigma factor; Provisional; Region: PRK12515 509169006606 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 509169006607 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 509169006608 DNA binding residues [nucleotide binding] 509169006609 Peptidase S8 family domain, uncharacterized subfamily 8; Region: Peptidases_S8_8; cd07492 509169006610 active site 509169006611 catalytic triad [active] 509169006612 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 509169006613 Heme exporter protein D (CcmD); Region: CcmD; cl11475 509169006614 CcmE; Region: CcmE; cl00994 509169006615 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 509169006616 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 509169006617 catalytic residues [active] 509169006618 central insert; other site 509169006619 Cytochrome C biogenesis protein; Region: CcmH; cl01179 509169006620 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 509169006621 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 509169006622 PAS fold; Region: PAS_4; pfam08448 509169006623 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 509169006624 putative active site [active] 509169006625 heme pocket [chemical binding]; other site 509169006626 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 509169006627 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 509169006628 dimer interface [polypeptide binding]; other site 509169006629 phosphorylation site [posttranslational modification] 509169006630 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 509169006631 ATP binding site [chemical binding]; other site 509169006632 Mg2+ binding site [ion binding]; other site 509169006633 G-X-G motif; other site 509169006634 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 509169006635 Response regulator receiver domain; Region: Response_reg; pfam00072 509169006636 active site 509169006637 phosphorylation site [posttranslational modification] 509169006638 intermolecular recognition site; other site 509169006639 dimerization interface [polypeptide binding]; other site 509169006640 circadian clock protein KaiC; Reviewed; Region: PRK09302 509169006641 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169006642 Walker A motif; other site 509169006643 ATP binding site [chemical binding]; other site 509169006644 Walker B motif; other site 509169006645 KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea; Region: KaiC; cd01124 509169006646 Walker A motif; other site 509169006647 ATP binding site [chemical binding]; other site 509169006648 Walker B motif; other site 509169006649 Response regulator receiver domain; Region: Response_reg; pfam00072 509169006650 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 509169006651 active site 509169006652 phosphorylation site [posttranslational modification] 509169006653 intermolecular recognition site; other site 509169006654 dimerization interface [polypeptide binding]; other site 509169006655 PAS fold; Region: PAS_4; pfam08448 509169006656 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 509169006657 PAS fold; Region: PAS_4; pfam08448 509169006658 PAS domain S-box; Region: sensory_box; TIGR00229 509169006659 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 509169006660 putative active site [active] 509169006661 heme pocket [chemical binding]; other site 509169006662 PAS fold; Region: PAS_3; pfam08447 509169006663 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 509169006664 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 509169006665 dimer interface [polypeptide binding]; other site 509169006666 phosphorylation site [posttranslational modification] 509169006667 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 509169006668 ATP binding site [chemical binding]; other site 509169006669 Mg2+ binding site [ion binding]; other site 509169006670 G-X-G motif; other site 509169006671 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 509169006672 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 509169006673 active site 509169006674 phosphorylation site [posttranslational modification] 509169006675 intermolecular recognition site; other site 509169006676 dimerization interface [polypeptide binding]; other site 509169006677 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 509169006678 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 509169006679 active site 509169006680 substrate binding site [chemical binding]; other site 509169006681 Mg2+ binding site [ion binding]; other site 509169006682 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 509169006683 Protein of unknown function, DUF488; Region: DUF488; cl01246 509169006684 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 509169006685 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 509169006686 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 509169006687 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 509169006688 integrase; Provisional; Region: PRK09692 509169006689 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 509169006690 active site 509169006691 Int/Topo IB signature motif; other site 509169006692 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 509169006693 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 509169006694 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 509169006695 active site 509169006696 metal binding site [ion binding]; metal-binding site 509169006697 interdomain interaction site; other site 509169006698 PemK-like protein; Region: PemK; cl00995 509169006699 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 509169006700 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 509169006701 putative metal binding site [ion binding]; other site 509169006702 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 509169006703 MobA/MobL family; Region: MobA_MobL; pfam03389 509169006705 Transposase domain (DUF772); Region: DUF772; cl12084 509169006706 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 509169006707 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 509169006708 active site 509169006709 NTP binding site [chemical binding]; other site 509169006710 nucleic acid binding site [nucleotide binding]; other site 509169006711 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 509169006712 Integrase core domain; Region: rve; cl01316 509169006713 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169006714 TIR domain; Region: TIR; cl02060 509169006715 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 509169006716 Protein of unknown function (DUF1629); Region: DUF1629; pfam07791 509169006717 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 509169006718 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 509169006719 Transposase domain (DUF772); Region: DUF772; cl12084 509169006720 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169006721 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169006722 Walker A/P-loop; other site 509169006723 ATP binding site [chemical binding]; other site 509169006724 ABC transporter signature motif; other site 509169006725 Walker B; other site 509169006726 D-loop; other site 509169006727 H-loop/switch region; other site 509169006728 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 509169006729 putative active site [active] 509169006730 putative NTP binding site [chemical binding]; other site 509169006731 putative nucleic acid binding site [nucleotide binding]; other site 509169006732 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 509169006733 Int/Topo IB signature motif; other site 509169006734 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 509169006735 MPN+ (JAMM) motif; other site 509169006736 Zinc-binding site [ion binding]; other site 509169006737 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 509169006738 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 509169006739 Transposase domain (DUF772); Region: DUF772; cl12084 509169006740 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 509169006741 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 509169006742 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 509169006743 Int/Topo IB signature motif; other site 509169006744 LysR family transcriptional regulator; Provisional; Region: PRK14997 509169006745 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169006746 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 509169006747 putative effector binding pocket; other site 509169006748 putative dimerization interface [polypeptide binding]; other site 509169006749 seryl-tRNA synthetase; Provisional; Region: PRK05431 509169006750 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 509169006751 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 bound...; Region: SerRS_core; cd00770 509169006752 dimer interface [polypeptide binding]; other site 509169006753 active site 509169006754 motif 1; other site 509169006755 motif 2; other site 509169006756 motif 3; other site 509169006757 Gram-negative bacterial tonB protein; Region: TonB; cl10048 509169006758 Gram-negative bacterial tonB protein; Region: TonB; cl10048 509169006759 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 509169006760 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 509169006761 hinge; other site 509169006762 active site 509169006763 Chorismate mutase type II; Region: CM_2; cl00693 509169006764 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 509169006765 Prephenate dehydratase; Region: PDT; pfam00800 509169006766 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 509169006767 putative L-Phe binding site [chemical binding]; other site 509169006768 Aminotransferase class-V; Region: Aminotran_5; pfam00266 509169006769 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 509169006770 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 509169006771 catalytic residue [active] 509169006772 TMAO/DMSO reductase; Reviewed; Region: PRK05363 509169006773 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 509169006774 Moco binding site; other site 509169006775 metal coordination site [ion binding]; other site 509169006776 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 509169006777 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 509169006778 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 509169006779 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 509169006780 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 509169006781 Restriction endonuclease; Region: Mrr_cat; cl00747 509169006782 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 509169006783 DNA-binding site [nucleotide binding]; DNA binding site 509169006784 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 509169006785 UTRA domain; Region: UTRA; cl01230 509169006786 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 509169006787 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 509169006788 active site 509169006789 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 509169006790 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 509169006791 active site 509169006792 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 509169006793 active sites [active] 509169006794 tetramer interface [polypeptide binding]; other site 509169006795 N-formylglutamate amidohydrolase; Region: FGase; cl01522 509169006796 urocanate hydratase; Provisional; Region: PRK05414 509169006797 urocanate hydratase; Region: hutU; TIGR01228 509169006798 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 509169006799 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 509169006800 Trp docking motif [polypeptide binding]; other site 509169006801 putative active site [active] 509169006802 DNA gyrase subunit A; Validated; Region: PRK05560 509169006803 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 DNA...; Region: TOP4c; cd00187 509169006804 CAP-like domain; other site 509169006805 active site 509169006806 primary dimer interface [polypeptide binding]; other site 509169006807 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 509169006808 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 509169006809 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 509169006810 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 509169006811 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 509169006812 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 509169006813 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 509169006814 Protein of unknown function (DUF3011); Region: DUF3011; pfam11218 509169006815 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 attaches...; Region: class_II_aaRS-like_core; cl00268 509169006816 lysyl-tRNA synthetase-like protein GenX; Region: genX; TIGR00462 509169006817 motif 1; other site 509169006818 dimer interface [polypeptide binding]; other site 509169006819 active site 509169006820 motif 2; other site 509169006821 motif 3; other site 509169006822 Ligase N family; Region: LIGANc; smart00532 509169006823 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 509169006824 nucleotide binding pocket [chemical binding]; other site 509169006825 K-X-D-G motif; other site 509169006826 catalytic site [active] 509169006827 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 509169006828 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 509169006829 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 509169006830 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 509169006831 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 509169006832 Dimer interface [polypeptide binding]; other site 509169006833 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 509169006834 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 509169006835 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169006836 homodimer interface [polypeptide binding]; other site 509169006837 catalytic residue [active] 509169006838 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 509169006839 FtsZ protein binding site [polypeptide binding]; other site 509169006840 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 509169006841 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 509169006842 Walker A/P-loop; other site 509169006843 ATP binding site [chemical binding]; other site 509169006844 Q-loop/lid; other site 509169006845 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 509169006846 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 509169006847 ABC transporter signature motif; other site 509169006848 Walker B; other site 509169006849 D-loop; other site 509169006850 H-loop/switch region; other site 509169006851 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 509169006852 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 509169006853 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 509169006854 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 509169006855 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 509169006856 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 509169006857 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 509169006858 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 509169006859 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 509169006860 putative dimer interface [polypeptide binding]; other site 509169006861 putative anticodon binding site; other site 509169006862 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 509169006863 homodimer interface [polypeptide binding]; other site 509169006864 motif 1; other site 509169006865 motif 2; other site 509169006866 active site 509169006867 motif 3; other site 509169006868 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 509169006869 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 509169006870 active site clefts [active] 509169006871 zinc binding site [ion binding]; other site 509169006872 dimer interface [polypeptide binding]; other site 509169006873 Cupin domain; Region: Cupin_2; cl09118 509169006874 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 509169006875 kynureninase; Region: kynureninase; TIGR01814 509169006876 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 509169006877 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 509169006878 catalytic residue [active] 509169006879 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 509169006880 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169006881 exonuclease I; Provisional; Region: sbcB; PRK11779 509169006882 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 509169006883 active site 509169006884 substrate binding site [chemical binding]; other site 509169006885 catalytic site [active] 509169006886 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 509169006887 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 509169006888 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 509169006889 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 509169006890 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 509169006891 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 509169006892 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 509169006893 THUMP domain; Region: THUMP; cl12076 509169006894 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 509169006895 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 509169006896 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 509169006897 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169006898 Walker A/P-loop; other site 509169006899 ATP binding site [chemical binding]; other site 509169006900 Q-loop/lid; other site 509169006901 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 facilitated...; Region: ABCF_EF-3; cd03221 509169006902 ABC transporter signature motif; other site 509169006903 Walker B; other site 509169006904 D-loop; other site 509169006905 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 509169006906 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 facilitated...; Region: ABCF_EF-3; cd03221 509169006907 hypothetical protein; Provisional; Region: PRK08317 509169006908 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 509169006909 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 509169006910 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 509169006911 Coenzyme A binding pocket [chemical binding]; other site 509169006912 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 509169006913 MOSC domain; Region: MOSC; pfam03473 509169006914 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 509169006915 amidase catalytic site [active] 509169006916 Zn binding residues [ion binding]; other site 509169006917 substrate binding site [chemical binding]; other site 509169006918 Protein of unknown function (DUF1684); Region: DUF1684; cl01327 509169006919 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 509169006920 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 509169006921 active site residue [active] 509169006922 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 509169006923 active site residue [active] 509169006924 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 509169006925 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 509169006926 putative active site [active] 509169006927 putative CoA binding site [chemical binding]; other site 509169006928 nudix motif; other site 509169006929 metal binding site [ion binding]; metal-binding site 509169006930 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 509169006931 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 509169006932 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 509169006933 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 509169006934 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 509169006935 substrate binding site [chemical binding]; other site 509169006936 oxyanion hole (OAH) forming residues; other site 509169006937 trimer interface [polypeptide binding]; other site 509169006938 endonuclease III; Provisional; Region: PRK10702 509169006939 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 509169006940 minor groove reading motif; other site 509169006941 helix-hairpin-helix signature motif; other site 509169006942 substrate binding pocket [chemical binding]; other site 509169006943 active site 509169006944 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 509169006945 Permease family; Region: Xan_ur_permease; cl00967 509169006946 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 509169006947 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 509169006948 active site clefts [active] 509169006949 zinc binding site [ion binding]; other site 509169006950 dimer interface [polypeptide binding]; other site 509169006951 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 509169006952 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 509169006953 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 509169006954 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 509169006955 dimer interface [polypeptide binding]; other site 509169006956 conserved gate region; other site 509169006957 putative PBP binding loops; other site 509169006958 ABC-ATPase subunit interface; other site 509169006959 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 509169006960 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 509169006961 dimer interface [polypeptide binding]; other site 509169006962 conserved gate region; other site 509169006963 putative PBP binding loops; other site 509169006964 ABC-ATPase subunit interface; other site 509169006965 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 509169006966 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 509169006967 Walker A/P-loop; other site 509169006968 ATP binding site [chemical binding]; other site 509169006969 Q-loop/lid; other site 509169006970 ABC transporter signature motif; other site 509169006971 Walker B; other site 509169006972 D-loop; other site 509169006973 H-loop/switch region; other site 509169006974 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 509169006975 PhoU domain; Region: PhoU; pfam01895 509169006976 PhoU domain; Region: PhoU; pfam01895 509169006977 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 509169006978 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 509169006979 dimer interface [polypeptide binding]; other site 509169006980 putative active site [active] 509169006981 putative substrate binding site [chemical binding]; other site 509169006982 catalytic site [active] 509169006983 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 509169006984 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169006985 metal binding site [ion binding]; metal-binding site 509169006986 active site 509169006987 I-site; other site 509169006988 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 509169006989 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 509169006990 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 509169006991 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 509169006992 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 509169006993 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 509169006994 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 509169006995 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 509169006996 ribonuclease R; Region: RNase_R; TIGR02063 509169006997 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 509169006998 RNB domain; Region: RNB; pfam00773 509169006999 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 important...; Region: S1_RNase_R; cd04471 509169007000 RNA binding site [nucleotide binding]; other site 509169007001 PAF_acetylhydrolase (PAF-AH)_like subfamily of SGNH-hydrolases. Platelet-activating factor (PAF) and PAF-AH are key players in inflammation and in atherosclerosis. PAF-AH is a calcium independent phospholipase A2 which exhibits strong substrate...; Region: PAF_acetylesterase_like; cd01820 509169007002 active site 509169007003 catalytic triad [active] 509169007004 oxyanion hole [active] 509169007005 specificity pocket; other site 509169007006 PAF_acetylhydrolase (PAF-AH)_like subfamily of SGNH-hydrolases. Platelet-activating factor (PAF) and PAF-AH are key players in inflammation and in atherosclerosis. PAF-AH is a calcium independent phospholipase A2 which exhibits strong substrate...; Region: PAF_acetylesterase_like; cd01820 509169007007 active site 509169007008 catalytic triad [active] 509169007009 oxyanion hole [active] 509169007010 specificity pocket; other site 509169007011 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 509169007012 active site 509169007013 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 509169007014 active site 509169007015 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 509169007016 active site 509169007017 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 509169007018 active site 509169007019 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 509169007020 active site 509169007021 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 509169007022 active site 509169007023 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 509169007024 active site 509169007025 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 509169007026 active site 509169007027 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 509169007028 active site 509169007029 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 509169007030 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 509169007031 active site 509169007032 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 509169007033 dimerization interface [polypeptide binding]; other site 509169007034 putative DNA binding site [nucleotide binding]; other site 509169007035 putative Zn2+ binding site [ion binding]; other site 509169007036 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 509169007037 S-adenosylmethionine binding site [chemical binding]; other site 509169007038 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 509169007039 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 509169007040 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 509169007041 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 509169007042 substrate binding pocket [chemical binding]; other site 509169007043 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 509169007044 B12 binding site [chemical binding]; other site 509169007045 cobalt ligand [ion binding]; other site 509169007046 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 509169007047 N-acyl-D-glucosamine 2-epimerase [Carbohydrate transport and metabolism]; Region: COG2942 509169007048 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 509169007049 dimerization interface [polypeptide binding]; other site 509169007050 putative active cleft [active] 509169007051 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 509169007052 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 509169007053 putative substrate binding site [chemical binding]; other site 509169007054 putative ATP binding site [chemical binding]; other site 509169007055 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 509169007056 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 509169007057 Transcriptional regulators [Transcription]; Region: PurR; COG1609 509169007058 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 509169007059 DNA binding site [nucleotide binding] 509169007060 domain linker motif; other site 509169007061 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 509169007062 putative ligand binding site [chemical binding]; other site 509169007063 putative dimerization interface [polypeptide binding]; other site 509169007064 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 509169007065 SlyX; Region: SlyX; cl01090 509169007066 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 509169007067 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169007068 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 509169007069 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169007070 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 509169007071 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 509169007072 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 509169007073 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 509169007074 catalytic residues [active] 509169007075 dimer interface [polypeptide binding]; other site 509169007076 Predicted transcriptional regulators [Transcription]; Region: COG1725 509169007077 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 509169007078 DNA-binding site [nucleotide binding]; DNA binding site 509169007079 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 509169007080 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 509169007081 Walker A/P-loop; other site 509169007082 ATP binding site [chemical binding]; other site 509169007083 Q-loop/lid; other site 509169007084 ABC transporter signature motif; other site 509169007085 Walker B; other site 509169007086 D-loop; other site 509169007087 H-loop/switch region; other site 509169007088 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 509169007089 Protein of unknown function (DUF2884); Region: DUF2884; cl08135 509169007090 Protein of unknown function (DUF2884); Region: DUF2884; cl08135 509169007091 fumarate hydratase; Reviewed; Region: fumC; PRK00485 509169007092 Class II fumarases; Region: Fumarase_classII; cd01362 509169007093 active site 509169007094 tetramer interface [polypeptide binding]; other site 509169007095 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 509169007096 Domain of unknown function DUF21; Region: DUF21; pfam01595 509169007097 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 509169007098 Transporter associated domain; Region: CorC_HlyC; cl08393 509169007099 adenylosuccinate lyase; Provisional; Region: PRK09285 509169007100 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 509169007101 tetramer interface [polypeptide binding]; other site 509169007102 active site 509169007103 Protein of unknown function (DUF3060); Region: DUF3060; pfam11259 509169007104 Cupin superfamily protein; Region: Cupin_4; pfam08007 509169007105 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 509169007106 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 509169007107 TPP-binding site [chemical binding]; other site 509169007108 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 509169007109 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 509169007110 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 509169007111 E3 interaction surface; other site 509169007112 lipoyl attachment site [posttranslational modification]; other site 509169007113 e3 binding domain; Region: E3_binding; pfam02817 509169007114 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 509169007115 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 509169007116 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169007117 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169007118 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 509169007119 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 509169007120 Uncharacterized conserved protein [Function unknown]; Region: COG1739 509169007121 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 509169007122 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 509169007123 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 509169007124 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 509169007125 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 509169007126 Walker A/P-loop; other site 509169007127 ATP binding site [chemical binding]; other site 509169007128 Q-loop/lid; other site 509169007129 ABC transporter signature motif; other site 509169007130 Walker B; other site 509169007131 D-loop; other site 509169007132 H-loop/switch region; other site 509169007133 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169007134 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 509169007135 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 509169007136 dimerization interface [polypeptide binding]; other site 509169007137 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 509169007138 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169007139 Walker A/P-loop; other site 509169007140 Q-loop/lid; other site 509169007141 ABC transporter signature motif; other site 509169007142 Walker B; other site 509169007143 D-loop; other site 509169007144 H-loop/switch region; other site 509169007145 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 509169007146 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 509169007147 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 509169007148 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 509169007149 prephenate dehydrogenase; Provisional; Region: PRK08818 509169007150 ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH); Region: ACT_AAAH-PDT-like; cd04880 509169007151 putative amino acid binding site [chemical binding]; other site 509169007152 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 509169007153 dimer interface [polypeptide binding]; other site 509169007154 pyridoxal binding site [chemical binding]; other site 509169007155 ATP binding site [chemical binding]; other site 509169007156 chaperone protein DnaJ; Provisional; Region: PRK10767 509169007157 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 509169007158 HSP70 interaction site [polypeptide binding]; other site 509169007159 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 509169007160 Zn binding sites [ion binding]; other site 509169007161 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 509169007162 dimer interface [polypeptide binding]; other site 509169007163 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 509169007164 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 509169007165 dimer interface [polypeptide binding]; other site 509169007166 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 509169007167 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 509169007168 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169007169 HrcA protein C terminal domain; Region: HrcA; pfam01628 509169007170 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 509169007171 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, and...; Region: ABC_RecN; cd03241 509169007172 Walker A/P-loop; other site 509169007173 ATP binding site [chemical binding]; other site 509169007174 Q-loop/lid; other site 509169007175 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, and...; Region: ABC_RecN; cd03241 509169007176 Q-loop/lid; other site 509169007177 ABC transporter signature motif; other site 509169007178 Walker B; other site 509169007179 D-loop; other site 509169007180 H-loop/switch region; other site 509169007181 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 509169007182 metal binding site 2 [ion binding]; metal-binding site 509169007183 putative DNA binding helix; other site 509169007184 metal binding site 1 [ion binding]; metal-binding site 509169007185 dimer interface [polypeptide binding]; other site 509169007186 structural Zn2+ binding site [ion binding]; other site 509169007187 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 509169007188 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl03735 509169007189 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 509169007190 putative coenzyme Q binding site [chemical binding]; other site 509169007191 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 509169007192 SmpB-tmRNA interface; other site 509169007193 Thioesterase domain; Region: Thioesterase; pfam00975 509169007194 PE-PPE domain; Region: PE-PPE; pfam08237 509169007195 Peptidase S8 family domain, uncharacterized subfamily 1; Region: Peptidases_S8_1; cd07487 509169007196 active site 509169007197 catalytic triad [active] 509169007198 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 509169007199 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 509169007200 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 509169007201 active site 509169007202 metal binding site [ion binding]; metal-binding site 509169007203 interdomain interaction site; other site 509169007204 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 509169007205 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 509169007206 Phage integrase family; Region: Phage_integrase; pfam00589 509169007207 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 509169007208 DNA binding site [nucleotide binding] 509169007209 Int/Topo IB signature motif; other site 509169007210 active site 509169007211 catalytic residues [active] 509169007212 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 509169007213 Int/Topo IB signature motif; other site 509169007214 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169007215 putative transposase OrfB; Reviewed; Region: PHA02517 509169007216 Integrase core domain; Region: rve; cl01316 509169007217 MobA/MobL family; Region: MobA_MobL; pfam03389 509169007218 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 509169007219 active site 509169007220 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 509169007221 Integrase core domain; Region: rve; cl01316 509169007222 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169007223 putative transposase OrfB; Reviewed; Region: PHA02517 509169007224 Integrase core domain; Region: rve; cl01316 509169007225 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169007226 Transposase domain (DUF772); Region: DUF772; cl12084 509169007227 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 509169007228 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 509169007229 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 509169007230 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 509169007231 putative transposase OrfB; Reviewed; Region: PHA02517 509169007232 Integrase core domain; Region: rve; cl01316 509169007233 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169007234 CHASE3 domain; Region: CHASE3; cl05000 509169007235 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169007236 metal binding site [ion binding]; metal-binding site 509169007237 active site 509169007238 I-site; other site 509169007239 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169007240 metal binding site [ion binding]; metal-binding site 509169007241 active site 509169007242 I-site; other site 509169007243 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 509169007244 Porcine testicular carbonyl reductase (PTCR)-like, classical (c) SDRs; Region: carb_red_PTCR-like_SDR_c; cd05324 509169007245 NADP binding site [chemical binding]; other site 509169007246 substrate binding site [chemical binding]; other site 509169007247 active site 509169007248 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 509169007249 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 509169007250 LysR family transcriptional regulator; Provisional; Region: PRK14997 509169007251 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169007252 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 509169007253 putative effector binding pocket; other site 509169007254 dimerization interface [polypeptide binding]; other site 509169007255 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 509169007256 ligand binding site [chemical binding]; other site 509169007257 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 509169007258 DNA photolyase; Region: DNA_photolyase; pfam00875 509169007259 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 509169007260 replicative DNA helicase; Provisional; Region: PRK08760 509169007261 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 509169007262 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 509169007263 Walker A motif; other site 509169007264 ATP binding site [chemical binding]; other site 509169007265 Walker B motif; other site 509169007266 DNA binding loops [nucleotide binding] 509169007267 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 509169007268 exosortase 1 system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 509169007269 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 509169007270 active site 509169007271 dimer interface [polypeptide binding]; other site 509169007272 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 509169007273 Ligand Binding Site [chemical binding]; other site 509169007274 Molecular Tunnel; other site 509169007275 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 509169007276 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 509169007277 putative C-terminal domain interface [polypeptide binding]; other site 509169007278 putative GSH binding site (G-site) [chemical binding]; other site 509169007279 putative dimer interface [polypeptide binding]; other site 509169007280 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 509169007281 N-terminal domain interface [polypeptide binding]; other site 509169007282 dimer interface [polypeptide binding]; other site 509169007283 substrate binding pocket (H-site) [chemical binding]; other site 509169007284 Domain of Unknown Function with PDB structure; Region: DUF3857; pfam12969 509169007285 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 509169007286 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 509169007287 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 509169007288 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 509169007289 active site 509169007290 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 509169007291 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 509169007292 active site 509169007293 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 509169007294 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 509169007295 putative ATP binding site [chemical binding]; other site 509169007296 putative substrate interface [chemical binding]; other site 509169007297 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 509169007298 DNA-binding site [nucleotide binding]; DNA binding site 509169007299 RNA-binding motif; other site 509169007300 Protein of unknown function (DUF456); Region: DUF456; cl01069 509169007301 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 509169007302 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 509169007303 dimerization interface [polypeptide binding]; other site 509169007304 substrate binding site [chemical binding]; other site 509169007305 active site 509169007306 calcium binding site [ion binding]; other site 509169007307 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_cladeC; cd03378 509169007308 active site clefts [active] 509169007309 zinc binding site [ion binding]; other site 509169007310 dimer interface [polypeptide binding]; other site 509169007311 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 509169007312 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 509169007313 C-terminal domain interface [polypeptide binding]; other site 509169007314 GSH binding site (G-site) [chemical binding]; other site 509169007315 dimer interface [polypeptide binding]; other site 509169007316 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 509169007317 dimer interface [polypeptide binding]; other site 509169007318 N-terminal domain interface [polypeptide binding]; other site 509169007319 substrate binding pocket (H-site) [chemical binding]; other site 509169007320 putative fumarate hydratase; Provisional; Region: PRK15392 509169007321 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 509169007322 Fumarase C-terminus; Region: Fumerase_C; cl00795 509169007323 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 509169007324 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169007325 Walker A/P-loop; other site 509169007326 ATP binding site [chemical binding]; other site 509169007327 Q-loop/lid; other site 509169007328 ABC transporter signature motif; other site 509169007329 Walker B; other site 509169007330 D-loop; other site 509169007331 H-loop/switch region; other site 509169007332 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 509169007333 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 509169007334 FAD binding pocket [chemical binding]; other site 509169007335 FAD binding motif [chemical binding]; other site 509169007336 phosphate binding motif [ion binding]; other site 509169007337 beta-alpha-beta structure motif; other site 509169007338 NAD binding pocket [chemical binding]; other site 509169007339 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 509169007340 catalytic residues [active] 509169007341 dimer interface [polypeptide binding]; other site 509169007342 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 509169007343 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 509169007344 active site 509169007345 Zn binding site [ion binding]; other site 509169007346 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169007347 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 509169007348 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 509169007349 Rhomboid family; Region: Rhomboid; cl11446 509169007350 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 509169007351 The Major Facilitator Superfamily (MFS) is a large and diverse group of 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 509169007352 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 509169007353 putative active site [active] 509169007354 Zn binding site [ion binding]; other site 509169007355 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 509169007356 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 509169007357 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 509169007358 Protein of unknown function (DUF2884); Region: DUF2884; cl08135 509169007359 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 509169007360 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169007361 putative substrate translocation pore; other site 509169007362 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169007363 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 509169007364 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 509169007365 Transcriptional regulators [Transcription]; Region: MarR; COG1846 509169007366 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169007367 Cupin domain; Region: Cupin_2; cl09118 509169007368 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 509169007369 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 509169007370 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 509169007371 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 DNA...; Region: TOP4c; cd00187 509169007372 CAP-like domain; other site 509169007373 active site 509169007374 primary dimer interface [polypeptide binding]; other site 509169007375 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 509169007376 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 509169007377 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 509169007378 heme binding site [chemical binding]; other site 509169007379 ferroxidase pore; other site 509169007380 ferroxidase diiron center [ion binding]; other site 509169007381 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 509169007382 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 509169007383 active site 509169007384 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 509169007385 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 509169007386 N-terminal plug; other site 509169007387 ligand-binding site [chemical binding]; other site 509169007388 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 509169007389 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 509169007390 asparagine synthetase B; Provisional; Region: asnB; PRK09431 509169007391 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 509169007392 active site 509169007393 dimer interface [polypeptide binding]; other site 509169007394 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 509169007395 Ligand Binding Site [chemical binding]; other site 509169007396 Molecular Tunnel; other site 509169007397 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 509169007398 Sel1 repeat; Region: Sel1; cl02723 509169007399 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 509169007400 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 509169007401 metal binding site [ion binding]; metal-binding site 509169007402 dimer interface [polypeptide binding]; other site 509169007403 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 509169007404 ArsC family; Region: ArsC; pfam03960 509169007405 putative catalytic residues [active] 509169007406 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 509169007407 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 509169007408 active site 509169007409 substrate binding site [chemical binding]; other site 509169007410 trimer interface [polypeptide binding]; other site 509169007411 CoA binding site [chemical binding]; other site 509169007412 PII uridylyl-transferase; Provisional; Region: PRK04374 509169007413 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 509169007414 metal binding triad; other site 509169007415 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 509169007416 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 509169007417 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 509169007418 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 509169007419 methionine aminopeptidase; Provisional; Region: PRK08671 509169007420 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 509169007421 active site 509169007422 Spore Coat Protein U domain; Region: SCPU; cl02253 509169007423 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 509169007424 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 509169007425 Fimbrial Usher protein; Region: Usher; cl14650 509169007426 Spore Coat Protein U domain; Region: SCPU; cl02253 509169007427 Spore Coat Protein U domain; Region: SCPU; cl02253 509169007428 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 509169007429 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 509169007430 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 509169007431 rRNA interaction site [nucleotide binding]; other site 509169007432 S8 interaction site; other site 509169007433 putative laminin-1 binding site; other site 509169007434 elongation factor Ts; Provisional; Region: tsf; PRK09377 509169007435 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 509169007436 Elongation factor TS; Region: EF_TS; pfam00889 509169007437 Elongation factor TS; Region: EF_TS; pfam00889 509169007438 HDOD domain; Region: HDOD; pfam08668 509169007439 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169007440 metal binding site [ion binding]; metal-binding site 509169007441 active site 509169007442 I-site; other site 509169007443 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 509169007444 putative nucleotide binding site [chemical binding]; other site 509169007445 uridine monophosphate binding site [chemical binding]; other site 509169007446 homohexameric interface [polypeptide binding]; other site 509169007447 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 509169007448 hinge region; other site 509169007449 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 509169007450 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 509169007451 catalytic residue [active] 509169007452 putative FPP diphosphate binding site; other site 509169007453 putative FPP binding hydrophobic cleft; other site 509169007454 dimer interface [polypeptide binding]; other site 509169007455 putative IPP diphosphate binding site; other site 509169007456 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 509169007457 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 509169007458 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 509169007459 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 509169007460 zinc metallopeptidase RseP; Provisional; Region: PRK10779 509169007461 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 509169007462 active site 509169007463 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 509169007464 protein binding site [polypeptide binding]; other site 509169007465 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 509169007466 putative substrate binding region [chemical binding]; other site 509169007467 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 509169007468 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 509169007469 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 509169007470 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 509169007471 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 509169007472 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 509169007473 Surface antigen; Region: Bac_surface_Ag; cl03097 509169007474 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 509169007475 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 509169007476 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 509169007477 trimer interface [polypeptide binding]; other site 509169007478 active site 509169007479 UDP-GlcNAc binding site [chemical binding]; other site 509169007480 lipid binding site [chemical binding]; lipid-binding site 509169007481 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 509169007482 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 509169007483 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 509169007484 active site 509169007485 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 509169007486 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 509169007487 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 509169007488 RNA/DNA hybrid binding site [nucleotide binding]; other site 509169007489 active site 509169007490 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 509169007491 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 509169007492 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 509169007493 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 509169007494 generic binding surface II; other site 509169007495 generic binding surface I; other site 509169007496 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 509169007497 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 509169007498 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]; Region: COG4700 509169007499 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 509169007500 binding surface 509169007501 TPR motif; other site 509169007502 Uncharacterised protein family (UPF0093); Region: UPF0093; cl00863 509169007503 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 509169007504 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 509169007505 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 509169007506 Protein of unknown function (DUF1700); Region: DUF1700; cl01933 509169007507 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169007508 Protein of unknown function (DUF502); Region: DUF502; cl01107 509169007509 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 509169007510 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 509169007511 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 509169007512 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 509169007513 Amino acid permease; Region: AA_permease; cl00524 509169007514 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 509169007515 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 509169007516 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 509169007517 putative metal binding site [ion binding]; other site 509169007518 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 509169007519 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169007520 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 509169007521 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169007522 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 509169007523 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 509169007524 active site 509169007525 HIGH motif; other site 509169007526 KMSKS motif; other site 509169007527 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 509169007528 tRNA binding surface [nucleotide binding]; other site 509169007529 anticodon binding site; other site 509169007530 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 509169007531 putative tRNA-binding site [nucleotide binding]; other site 509169007532 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 509169007533 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 509169007534 ferredoxin; Provisional; Region: PRK08764 509169007535 Putative Fe-S cluster; Region: FeS; pfam04060 509169007536 4Fe-4S binding domain; Region: Fer4; cl02805 509169007537 RNA polymerase sigma factor; Provisional; Region: PRK12534 509169007538 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 509169007539 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 509169007540 DNA binding residues [nucleotide binding] 509169007541 Anti-sigma-K factor rskA; Region: RskA; cl15366 509169007542 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 509169007543 Di-iron ligands [ion binding]; other site 509169007544 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 509169007545 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 509169007546 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169007547 Uncharacterized conserved protein [Function unknown]; Region: COG3496 509169007548 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 509169007549 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 509169007550 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 509169007551 S-adenosylmethionine binding site [chemical binding]; other site 509169007552 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 509169007553 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 509169007554 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 509169007555 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 509169007556 S-adenosylmethionine binding site [chemical binding]; other site 509169007557 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 509169007558 homotrimer interaction site [polypeptide binding]; other site 509169007559 putative active site [active] 509169007561 Transposase domain (DUF772); Region: DUF772; cl12084 509169007562 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 509169007564 Predicted integral membrane protein [Function unknown]; Region: COG0392 509169007565 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 509169007566 Uncharacterized conserved protein [Function unknown]; Region: COG2898 509169007567 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 509169007568 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 509169007569 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 509169007570 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 509169007571 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 509169007572 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 509169007573 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 509169007574 MFS transport protein AraJ; Provisional; Region: PRK10091 509169007575 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169007576 putative substrate translocation pore; other site 509169007577 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 509169007578 FMN binding site [chemical binding]; other site 509169007579 active site 509169007580 substrate binding site [chemical binding]; other site 509169007581 catalytic residue [active] 509169007582 hypothetical protein; Provisional; Region: PRK06132 509169007583 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 509169007584 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 509169007585 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 509169007586 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 509169007587 xylulokinase; Region: PLN02669 509169007588 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 509169007589 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 509169007590 PhnA protein; Region: PhnA; pfam03831 509169007591 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 509169007592 Cation efflux family; Region: Cation_efflux; cl00316 509169007593 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 509169007594 putative chaperone; Provisional; Region: PRK11678 509169007595 Uncharacterized conserved protein [Function unknown]; Region: COG3595 509169007596 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 509169007597 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl15358 509169007598 Mechanosensitive ion channel; Region: MS_channel; pfam00924 509169007599 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 509169007600 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 509169007601 Protein of unknown function DUF45; Region: DUF45; cl00636 509169007602 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 509169007603 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 509169007604 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 509169007605 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 509169007606 NAD binding site [chemical binding]; other site 509169007607 Phe binding site; other site 509169007608 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 509169007609 putative active site [active] 509169007610 catalytic triad [active] 509169007611 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 509169007612 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 509169007613 Autotransporter beta-domain; Region: Autotransporter; cl02365 509169007614 putative acyltransferase; Provisional; Region: PRK05790 509169007615 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 509169007616 dimer interface [polypeptide binding]; other site 509169007617 active site 509169007618 CHASE3 domain; Region: CHASE3; cl05000 509169007619 GAF domain; Region: GAF; cl00853 509169007620 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169007621 metal binding site [ion binding]; metal-binding site 509169007622 active site 509169007623 I-site; other site 509169007624 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 509169007625 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 509169007626 Transposase family tnp2; Region: Transposase_21; pfam02992 509169007627 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 509169007628 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 509169007629 ATP-dependent DNA ligase; Validated; Region: PRK09247 509169007630 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 509169007631 active site 509169007632 DNA binding site [nucleotide binding] 509169007633 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 509169007634 DNA binding site [nucleotide binding] 509169007635 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 509169007636 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 509169007637 ATP binding site [chemical binding]; other site 509169007638 putative Mg++ binding site [ion binding]; other site 509169007639 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 509169007640 nucleotide binding region [chemical binding]; other site 509169007641 ATP-binding site [chemical binding]; other site 509169007642 DEAD/H associated; Region: DEAD_assoc; pfam08494 509169007643 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 509169007644 putative active site [active] 509169007645 putative metal binding site [ion binding]; other site 509169007646 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169007647 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 509169007648 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169007649 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 509169007650 DNA-binding site [nucleotide binding]; DNA binding site 509169007651 RNA-binding motif; other site 509169007652 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 509169007653 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 509169007654 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 509169007655 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 509169007656 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 509169007657 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 509169007658 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 509169007659 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169007660 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 509169007661 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 509169007662 catalytic residues [active] 509169007663 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 509169007664 putative active site [active] 509169007665 putative metal binding residues [ion binding]; other site 509169007666 signature motif; other site 509169007667 putative dimer interface [polypeptide binding]; other site 509169007668 putative phosphate binding site [ion binding]; other site 509169007669 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 509169007670 TRAM domain; Region: TRAM; cl01282 509169007671 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 509169007672 S-adenosylmethionine binding site [chemical binding]; other site 509169007673 Response regulator receiver domain; Region: Response_reg; pfam00072 509169007674 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 509169007675 active site 509169007676 phosphorylation site [posttranslational modification] 509169007677 intermolecular recognition site; other site 509169007678 dimerization interface [polypeptide binding]; other site 509169007679 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 509169007680 Recombination protein O N terminal; Region: RecO_N; pfam11967 509169007681 Recombination protein O C terminal; Region: RecO_C; pfam02565 509169007682 GTPase Era; Reviewed; Region: era; PRK00089 509169007683 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, possibly...; Region: Era; cd04163 509169007684 G1 box; other site 509169007685 GTP/Mg2+ binding site [chemical binding]; other site 509169007686 Switch I region; other site 509169007687 G2 box; other site 509169007688 Switch II region; other site 509169007689 G3 box; other site 509169007690 G4 box; other site 509169007691 G5 box; other site 509169007692 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 that...; Region: KH-I; cl00098 509169007693 ribonuclease III; Reviewed; Region: rnc; PRK00102 509169007694 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 509169007695 dimerization interface [polypeptide binding]; other site 509169007696 active site 509169007697 metal binding site [ion binding]; metal-binding site 509169007698 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 509169007699 dsRNA binding site [nucleotide binding]; other site 509169007700 signal peptidase I; Provisional; Region: PRK10861 509169007701 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 509169007702 Catalytic site [active] 509169007703 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 509169007704 GTP-binding protein LepA; Provisional; Region: PRK05433 509169007705 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 509169007706 G1 box; other site 509169007707 putative GEF interaction site [polypeptide binding]; other site 509169007708 GTP/Mg2+ binding site [chemical binding]; other site 509169007709 Switch I region; other site 509169007710 G2 box; other site 509169007711 G3 box; other site 509169007712 Switch II region; other site 509169007713 G4 box; other site 509169007714 G5 box; other site 509169007715 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 509169007716 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 509169007717 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 509169007718 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 509169007719 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 triad...; Region: Tryp_SPc; cl00149 509169007720 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 509169007721 protein binding site [polypeptide binding]; other site 509169007722 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 509169007723 protein binding site [polypeptide binding]; other site 509169007724 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 509169007725 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 509169007726 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 509169007727 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 509169007728 DNA binding residues [nucleotide binding] 509169007729 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 509169007730 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 509169007731 substrate binding site [chemical binding]; other site 509169007732 oxyanion hole (OAH) forming residues; other site 509169007733 trimer interface [polypeptide binding]; other site 509169007734 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 509169007735 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 509169007736 Cation efflux family; Region: Cation_efflux; cl00316 509169007737 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169007738 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 509169007739 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 509169007740 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 509169007741 substrate binding site [chemical binding]; other site 509169007742 oxyanion hole (OAH) forming residues; other site 509169007743 trimer interface [polypeptide binding]; other site 509169007744 enoyl-CoA hydratase; Provisional; Region: PRK09076 509169007745 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 509169007746 substrate binding site [chemical binding]; other site 509169007747 oxyanion hole (OAH) forming residues; other site 509169007748 trimer interface [polypeptide binding]; other site 509169007749 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 509169007750 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 509169007751 active site 509169007752 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 509169007753 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 509169007754 tetrameric interface [polypeptide binding]; other site 509169007755 NAD binding site [chemical binding]; other site 509169007756 catalytic residues [active] 509169007757 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169007758 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 509169007759 Domain of unknown function (DUF955); Region: DUF955; cl01076 509169007760 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 509169007761 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 509169007762 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169007763 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 509169007764 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 509169007765 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 509169007766 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 509169007767 domain; Region: Glyco_hydro_2; pfam00703 509169007768 Alpha-L-fucosidase [Carbohydrate transport and metabolism]; Region: COG3669 509169007769 Alpha-L-fucosidase; Region: Alpha_L_fucos; cl12119 509169007770 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 509169007771 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 509169007772 putative transposase OrfB; Reviewed; Region: PHA02517 509169007773 Integrase core domain; Region: rve; cl01316 509169007774 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169007775 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 509169007776 N-acetyl-D-glucosamine binding site [chemical binding]; other site 509169007777 catalytic residue [active] 509169007778 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 509169007779 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 509169007780 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 509169007781 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 509169007782 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 509169007783 Bacterial type III secretion protein (HrpB7); Region: HrpB7; cl09720 509169007784 type III secretion system ATPase; Provisional; Region: PRK09099 509169007785 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 509169007786 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 509169007787 Walker A motif/ATP binding site; other site 509169007788 Walker B motif; other site 509169007789 type III secretion system protein HrpB; Validated; Region: PRK09098 509169007790 Bacterial type III secretion protein (HrpB4); Region: HrpB4; cl09735 509169007791 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 509169007792 Bacterial type III secretion protein (HrpB2); Region: HrpB2; cl09721 509169007793 Bacterial type III secretion protein (HrpB1_HrpK); Region: HrpB1_HrpK; cl09830 509169007794 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 509169007795 FlhB HrpN YscU SpaS Family; Region: Bac_export_2; pfam01312 509169007796 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 509169007797 FHIPEP family; Region: FHIPEP; pfam00771 509169007798 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 509169007799 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 509169007800 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 509169007801 FliP family; Region: FliP; cl00593 509169007802 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 509169007803 Pectate lyase; Region: Pectate_lyase; pfam03211 509169007804 NolX protein; Region: NolX; pfam05819 509169007805 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 509169007806 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169007807 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 509169007808 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169007809 transaminase; Validated; Region: PRK07324 509169007810 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 509169007811 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169007812 homodimer interface [polypeptide binding]; other site 509169007813 catalytic residue [active] 509169007814 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 509169007815 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169007816 NAD(P) binding site [chemical binding]; other site 509169007817 active site 509169007818 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 509169007819 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 509169007820 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 509169007821 catalytic residue [active] 509169007822 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 509169007823 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 509169007824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169007827 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 509169007828 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 509169007829 Zn binding site [ion binding]; other site 509169007830 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 509169007831 Piwi_piwi-like_ProArk: PIWI domain, Piwi-like subfamily found in Archaea and Bacteria. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs; Region: Piwi_piwi-like_ProArk; cd04659 509169007832 5' RNA guide strand anchoring site; other site 509169007833 active site 509169007834 MobA/MobL family; Region: MobA_MobL; pfam03389 509169007835 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 509169007836 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 509169007837 Protein of unknown function (DUF1629); Region: DUF1629; pfam07791 509169007838 Exonuclease VII, large subunit; Region: Exonuc_VII_L; pfam02601 509169007839 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 509169007840 MPN+ (JAMM) motif; other site 509169007841 Zinc-binding site [ion binding]; other site 509169007842 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 509169007843 Int/Topo IB signature motif; other site 509169007844 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169007845 Uncharacterized protein with protein kinase and helix-hairpin-helix DNA-binding domains [General function prediction only]; Region: COG4248 509169007846 VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subfamily; cd01464 509169007847 metal ion-dependent adhesion site (MIDAS); other site 509169007848 RNA polymerase sigma-F factor; Region: spore_sigF; TIGR02885 509169007849 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 509169007850 non-specific DNA binding site [nucleotide binding]; other site 509169007851 salt bridge; other site 509169007852 sequence-specific DNA binding site [nucleotide binding]; other site 509169007853 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 509169007854 active site 509169007855 Int/Topo IB signature motif; other site 509169007856 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 509169007857 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 509169007858 Int/Topo IB signature motif; other site 509169007859 active site 509169007860 DNA binding site [nucleotide binding] 509169007861 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 509169007862 MutS domain I; Region: MutS_I; pfam01624 509169007863 MutS domain II; Region: MutS_II; pfam05188 509169007864 MutS family domain IV; Region: MutS_IV; pfam05190 509169007865 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 509169007866 Walker A/P-loop; other site 509169007867 ATP binding site [chemical binding]; other site 509169007868 Q-loop/lid; other site 509169007869 ABC transporter signature motif; other site 509169007870 Walker B; other site 509169007871 D-loop; other site 509169007872 H-loop/switch region; other site 509169007873 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 509169007874 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 509169007875 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 509169007876 dimer interface [polypeptide binding]; other site 509169007877 active site 509169007878 heme binding site [chemical binding]; other site 509169007879 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 509169007880 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 509169007881 RNA binding surface [nucleotide binding]; other site 509169007882 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 509169007883 MatE; Region: MatE; cl10513 509169007884 MatE; Region: MatE; cl10513 509169007885 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 509169007886 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 509169007887 16S rRNA processing protein RimM; Region: 16S_RimM; TIGR02273 509169007888 RimM N-terminal domain; Region: RimM; pfam01782 509169007889 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 produce...; Region: PRCH; cl09959 509169007890 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 509169007891 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 509169007892 homodimer interface [polypeptide binding]; other site 509169007893 substrate-cofactor binding pocket; other site 509169007894 Aminotransferase class IV; Region: Aminotran_4; pfam01063 509169007895 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169007896 catalytic residue [active] 509169007897 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 509169007898 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 509169007899 FMN binding site [chemical binding]; other site 509169007900 substrate binding site [chemical binding]; other site 509169007901 putative catalytic residue [active] 509169007902 Uncharacterized protein conserved in bacteria (DUF2314); Region: DUF2314; cl01543 509169007903 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 509169007904 signal recognition particle protein; Provisional; Region: PRK10867 509169007905 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 509169007906 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 509169007907 P loop; other site 509169007908 GTP binding site [chemical binding]; other site 509169007909 Signal peptide binding domain; Region: SRP_SPB; pfam02978 509169007910 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 509169007911 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 509169007912 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 509169007913 active site 509169007914 catalytic residues [active] 509169007915 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 509169007916 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 509169007917 Transcriptional regulator [Transcription]; Region: LysR; COG0583 509169007918 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169007919 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 509169007920 putative effector binding pocket; other site 509169007921 dimerization interface [polypeptide binding]; other site 509169007922 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 509169007923 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 509169007924 active site 509169007925 catalytic residues [active] 509169007926 Response regulator receiver domain; Region: Response_reg; pfam00072 509169007927 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 509169007928 active site 509169007929 phosphorylation site [posttranslational modification] 509169007930 intermolecular recognition site; other site 509169007931 dimerization interface [polypeptide binding]; other site 509169007932 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 509169007933 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 509169007934 putative active site [active] 509169007935 heme pocket [chemical binding]; other site 509169007936 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169007937 dimer interface [polypeptide binding]; other site 509169007938 phosphorylation site [posttranslational modification] 509169007939 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 509169007940 ATP binding site [chemical binding]; other site 509169007941 Mg2+ binding site [ion binding]; other site 509169007942 G-X-G motif; other site 509169007943 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 509169007944 GAF domain; Region: GAF; cl00853 509169007945 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169007946 dimer interface [polypeptide binding]; other site 509169007947 phosphorylation site [posttranslational modification] 509169007948 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 509169007949 ATP binding site [chemical binding]; other site 509169007950 Mg2+ binding site [ion binding]; other site 509169007951 G-X-G motif; other site 509169007952 Response regulator receiver domain; Region: Response_reg; pfam00072 509169007953 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 509169007954 active site 509169007955 phosphorylation site [posttranslational modification] 509169007956 intermolecular recognition site; other site 509169007957 dimerization interface [polypeptide binding]; other site 509169007958 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 509169007959 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 509169007960 active site 509169007961 phosphorylation site [posttranslational modification] 509169007962 intermolecular recognition site; other site 509169007963 dimerization interface [polypeptide binding]; other site 509169007964 Response regulator receiver domain; Region: Response_reg; pfam00072 509169007965 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 509169007966 active site 509169007967 phosphorylation site [posttranslational modification] 509169007968 intermolecular recognition site; other site 509169007969 dimerization interface [polypeptide binding]; other site 509169007970 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 509169007971 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 509169007972 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 509169007973 CheB methylesterase; Region: CheB_methylest; pfam01339 509169007974 Response regulator receiver domain; Region: Response_reg; pfam00072 509169007975 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 509169007976 active site 509169007977 phosphorylation site [posttranslational modification] 509169007978 intermolecular recognition site; other site 509169007979 dimerization interface [polypeptide binding]; other site 509169007980 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169007981 dimer interface [polypeptide binding]; other site 509169007982 phosphorylation site [posttranslational modification] 509169007983 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 509169007984 ATP binding site [chemical binding]; other site 509169007985 Mg2+ binding site [ion binding]; other site 509169007986 G-X-G motif; other site 509169007987 Protein of unknown function (DUF1428); Region: DUF1428; cl02319 509169007988 thioredoxin 2; Provisional; Region: PRK10996 509169007989 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 509169007990 catalytic residues [active] 509169007991 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 509169007992 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 509169007993 N-terminal plug; other site 509169007994 ligand-binding site [chemical binding]; other site 509169007995 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 509169007996 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 509169007997 inhibitor binding site; inhibition site 509169007998 active site 509169007999 Response regulator receiver domain; Region: Response_reg; pfam00072 509169008000 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 509169008001 active site 509169008002 phosphorylation site [posttranslational modification] 509169008003 intermolecular recognition site; other site 509169008004 dimerization interface [polypeptide binding]; other site 509169008005 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 509169008006 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 509169008007 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169008008 dimer interface [polypeptide binding]; other site 509169008009 phosphorylation site [posttranslational modification] 509169008010 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 509169008011 ATP binding site [chemical binding]; other site 509169008012 Mg2+ binding site [ion binding]; other site 509169008013 G-X-G motif; other site 509169008014 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 509169008015 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 509169008016 active site 509169008017 phosphorylation site [posttranslational modification] 509169008018 intermolecular recognition site; other site 509169008019 dimerization interface [polypeptide binding]; other site 509169008020 rod shape-determining protein MreC; Provisional; Region: PRK13922 509169008021 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169008022 dimer interface [polypeptide binding]; other site 509169008023 phosphorylation site [posttranslational modification] 509169008024 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 509169008025 ATP binding site [chemical binding]; other site 509169008026 Mg2+ binding site [ion binding]; other site 509169008027 G-X-G motif; other site 509169008028 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 509169008029 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 509169008030 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 509169008031 Sulphate Transporter and Anti-Sigma factor antagonist domain of the 'stressosome' complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 509169008032 Sulphate Transporter and Anti-Sigma factor antagonist domain of the 'stressosome' complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; Region: STAS_RsbR_RsbS_like; cd07041 509169008033 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 509169008034 active site 509169008035 FMN binding site [chemical binding]; other site 509169008036 substrate binding site [chemical binding]; other site 509169008037 homotetramer interface [polypeptide binding]; other site 509169008038 catalytic residue [active] 509169008039 Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]; Region: HtpG; COG0326 509169008040 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 509169008041 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 509169008042 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 509169008043 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 509169008044 active site 509169008045 phosphorylation site [posttranslational modification] 509169008046 intermolecular recognition site; other site 509169008047 dimerization interface [polypeptide binding]; other site 509169008048 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 509169008049 DNA binding site [nucleotide binding] 509169008050 Protein of unknown function (DUF805); Region: DUF805; cl01224 509169008051 DNA repair protein RadA; Provisional; Region: PRK11823 509169008052 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169008053 Walker A motif; other site 509169008054 ATP binding site [chemical binding]; other site 509169008055 Walker B motif; other site 509169008056 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 509169008057 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 509169008058 Tetratricopeptide repeat; Region: TPR_3; pfam07720 509169008059 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 509169008060 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 509169008061 protein binding site [polypeptide binding]; other site 509169008062 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 509169008063 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 509169008064 Subunit I/III interface [polypeptide binding]; other site 509169008065 Subunit III/IV interface [polypeptide binding]; other site 509169008066 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 509169008067 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 509169008068 D-pathway; other site 509169008069 Putative ubiquinol binding site [chemical binding]; other site 509169008070 Low-spin heme (heme b) binding site [chemical binding]; other site 509169008071 Putative water exit pathway; other site 509169008072 Binuclear center (heme o3/CuB) [ion binding]; other site 509169008073 K-pathway; other site 509169008074 Putative proton exit pathway; other site 509169008075 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 509169008076 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 509169008077 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 509169008078 LytB protein; Region: LYTB; cl00507 509169008079 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 509169008080 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 509169008081 lipoprotein signal peptidase; Provisional; Region: PRK14787 509169008082 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 509169008083 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 509169008084 active site 509169008085 HIGH motif; other site 509169008086 nucleotide binding site [chemical binding]; other site 509169008087 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 509169008088 active site 509169008089 KMSKS motif; other site 509169008090 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 509169008091 tRNA binding surface [nucleotide binding]; other site 509169008092 anticodon binding site; other site 509169008093 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 509169008094 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 509169008095 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 509169008096 active site 509169008097 Riboflavin kinase; Region: Flavokinase; cl03312 509169008098 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 509169008099 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 509169008100 GTPase CgtA; Reviewed; Region: obgE; PRK12299 509169008101 GTP1/OBG; Region: GTP1_OBG; pfam01018 509169008102 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 509169008103 G1 box; other site 509169008104 GTP/Mg2+ binding site [chemical binding]; other site 509169008105 Switch I region; other site 509169008106 G2 box; other site 509169008107 G3 box; other site 509169008108 Switch II region; other site 509169008109 G4 box; other site 509169008110 G5 box; other site 509169008111 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 509169008112 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 509169008113 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 509169008114 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 509169008115 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 509169008116 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 509169008117 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 509169008118 active site 509169008119 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 509169008120 substrate binding site [chemical binding]; other site 509169008121 oxyanion hole (OAH) forming residues; other site 509169008122 trimer interface [polypeptide binding]; other site 509169008123 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 509169008124 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 509169008125 active site 509169008126 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 509169008127 catalytic triad [active] 509169008128 dimer interface [polypeptide binding]; other site 509169008129 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 509169008130 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 509169008131 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 509169008132 DNA binding residues [nucleotide binding] 509169008133 transaldolase/EF-hand domain-containing protein; Provisional; Region: PRK12309 509169008134 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 509169008135 Ca2+ binding site [ion binding]; other site 509169008136 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 509169008137 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 509169008138 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 509169008139 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 509169008140 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169008141 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 509169008142 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 509169008143 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 509169008144 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 509169008145 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 509169008146 endonuclease III; Region: ENDO3c; smart00478 509169008147 minor groove reading motif; other site 509169008148 helix-hairpin-helix signature motif; other site 509169008149 substrate binding pocket [chemical binding]; other site 509169008150 active site 509169008151 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 509169008152 putative hydrophobic ligand binding site [chemical binding]; other site 509169008153 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl11406 509169008154 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 509169008155 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 509169008156 active site 509169008157 phosphorylation site [posttranslational modification] 509169008158 intermolecular recognition site; other site 509169008159 dimerization interface [polypeptide binding]; other site 509169008160 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 509169008161 DNA binding residues [nucleotide binding] 509169008162 dimerization interface [polypeptide binding]; other site 509169008163 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 509169008164 Histidine kinase; Region: HisKA_3; pfam07730 509169008165 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 509169008166 ATP binding site [chemical binding]; other site 509169008167 Mg2+ binding site [ion binding]; other site 509169008168 G-X-G motif; other site 509169008169 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 509169008170 septum formation inhibitor; Reviewed; Region: minC; PRK04596 509169008171 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 509169008172 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 509169008173 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 509169008174 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 509169008175 Switch I; other site 509169008176 Switch II; other site 509169008177 Septum formation topological specificity factor MinE; Region: MinE; cl00538 509169008178 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 509169008179 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169008180 dimer interface [polypeptide binding]; other site 509169008181 phosphorylation site [posttranslational modification] 509169008182 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 509169008183 ATP binding site [chemical binding]; other site 509169008184 Mg2+ binding site [ion binding]; other site 509169008185 G-X-G motif; other site 509169008186 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 509169008187 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 509169008188 active site 509169008189 phosphorylation site [posttranslational modification] 509169008190 intermolecular recognition site; other site 509169008191 dimerization interface [polypeptide binding]; other site 509169008192 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 509169008193 DNA binding site [nucleotide binding] 509169008194 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 509169008195 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 509169008196 active site 509169008197 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 509169008198 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 509169008199 Sulfatase; Region: Sulfatase; cl10460 509169008200 Angiotensin-converting enzyme; Region: Peptidase_M2; pfam01401 509169008201 Peptidase family M2 Angiotensin converting enzyme (ACE); Region: M2_ACE; cd06461 509169008202 active site 509169008203 Zn binding site [ion binding]; other site 509169008204 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 509169008205 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169008206 putative substrate translocation pore; other site 509169008207 glycine dehydrogenase; Provisional; Region: PRK05367 509169008208 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 509169008209 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 509169008210 catalytic residue [active] 509169008211 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 509169008212 tetramer interface [polypeptide binding]; other site 509169008213 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169008214 catalytic residue [active] 509169008215 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 509169008216 active site 509169008217 catalytic tetrad [active] 509169008218 hydroperoxidase II; Provisional; Region: katE; PRK11249 509169008219 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 509169008220 tetramer interface [polypeptide binding]; other site 509169008221 heme binding pocket [chemical binding]; other site 509169008222 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 509169008223 domain interactions; other site 509169008224 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 509169008225 PAS fold; Region: PAS_4; pfam08448 509169008226 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 509169008227 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 509169008228 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 509169008229 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 509169008230 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 509169008231 OPT oligopeptide transporter protein; Region: OPT; cl14607 509169008232 Protein of unknown function (DUF3757); Region: DUF3757; pfam12582 509169008233 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 509169008234 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 509169008235 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 509169008236 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 509169008237 generic binding surface I; other site 509169008238 generic binding surface II; other site 509169008239 DNA Polymerase Y-family; Region: PolY_like; cd03468 509169008240 active site 509169008241 DNA binding site [nucleotide binding] 509169008242 Cell division inhibitor SulA; Region: SulA; cl01880 509169008243 LexA repressor; Provisional; Region: PRK12423 509169008244 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169008245 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 509169008246 Catalytic site [active] 509169008247 Cupin domain; Region: Cupin_2; cl09118 509169008248 T5orf172 domain; Region: T5orf172; cl11176 509169008249 Protein of unknown function (DUF763); Region: DUF763; cl00620 509169008250 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 509169008251 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 509169008252 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 509169008253 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 509169008254 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 509169008255 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 509169008256 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 509169008257 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 509169008258 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 509169008259 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 509169008260 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 509169008261 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13643 509169008262 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169008263 ABC transporter signature motif; other site 509169008264 Walker B; other site 509169008265 D-loop; other site 509169008266 H-loop/switch region; other site 509169008267 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169008268 Walker A/P-loop; other site 509169008269 ATP binding site [chemical binding]; other site 509169008270 Q-loop/lid; other site 509169008271 ABC transporter signature motif; other site 509169008272 Walker B; other site 509169008273 D-loop; other site 509169008274 H-loop/switch region; other site 509169008275 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 509169008276 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 509169008277 Zn-finger in ubiquitin-hydrolases and other protein; Region: zf-UBP; cl09957 509169008278 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 509169008279 ligand binding site [chemical binding]; other site 509169008280 flexible hinge region; other site 509169008281 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 509169008282 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 509169008283 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169008284 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169008285 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 509169008286 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 509169008287 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 509169008288 putative NAD(P) binding site [chemical binding]; other site 509169008289 active site 509169008290 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 509169008291 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 509169008292 Protein of unknown function (DUF429); Region: DUF429; cl12046 509169008293 oxidoreductase; Provisional; Region: PRK06128 509169008294 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 509169008295 NAD binding site [chemical binding]; other site 509169008296 metal binding site [ion binding]; metal-binding site 509169008297 active site 509169008298 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 509169008299 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 509169008300 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 509169008301 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 509169008302 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 509169008303 putative substrate binding site [chemical binding]; other site 509169008304 putative ATP binding site [chemical binding]; other site 509169008305 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 509169008306 catalytic core [active] 509169008307 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 509169008308 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169008309 NH_2: A subgroup of nucleoside hydrolases. This group contains eukaryotic and bacterial proteins similar to nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes...; Region: nuc_hydro_2; cd02652 509169008310 active site 509169008311 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 509169008312 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 509169008313 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 509169008314 ATP binding site [chemical binding]; other site 509169008315 putative Mg++ binding site [ion binding]; other site 509169008316 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 509169008317 Virulence protein [General function prediction only]; Region: COG3943 509169008318 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 509169008319 HsdM N-terminal domain; Region: HsdM_N; pfam12161 509169008320 Restriction endonuclease; Region: Mrr_cat; cl00747 509169008321 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 509169008322 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 509169008323 Zn binding site [ion binding]; other site 509169008324 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 509169008325 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 509169008326 GDP-binding site [chemical binding]; other site 509169008327 ACT binding site; other site 509169008328 IMP binding site; other site 509169008329 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 509169008330 HflC protein; Region: hflC; TIGR01932 509169008331 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 509169008332 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 509169008333 HflK protein; Region: hflK; TIGR01933 509169008334 Response regulator receiver domain; Region: Response_reg; pfam00072 509169008335 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 509169008336 active site 509169008337 phosphorylation site [posttranslational modification] 509169008338 intermolecular recognition site; other site 509169008339 dimerization interface [polypeptide binding]; other site 509169008340 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 509169008341 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 509169008342 HSP70 interaction site [polypeptide binding]; other site 509169008343 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 509169008344 substrate binding site [polypeptide binding]; other site 509169008345 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 509169008346 putative dimer interface [polypeptide binding]; other site 509169008347 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 509169008348 catalytic triad [active] 509169008349 dimer interface [polypeptide binding]; other site 509169008350 Ferritin-like domain; Region: Ferritin; pfam00210 509169008351 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 509169008352 dinuclear metal binding motif [ion binding]; other site 509169008353 penicillin-binding protein 1C; Provisional; Region: PRK11240 509169008354 Transglycosylase; Region: Transgly; cl07896 509169008355 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 509169008356 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 509169008357 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 509169008358 putative active site [active] 509169008359 catalytic site [active] 509169008360 putative metal binding site [ion binding]; other site 509169008361 oligomer interface [polypeptide binding]; other site 509169008362 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 509169008363 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169008364 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169008365 Transposase IS200 like; Region: Y1_Tnp; cl00848 509169008366 Transposase IS200 like; Region: Y1_Tnp; cl00848 509169008367 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 509169008368 MG2 domain; Region: A2M_N; pfam01835 509169008369 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 509169008370 Alpha-2-macroglobulin family; Region: A2M; pfam00207 509169008371 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 509169008372 surface patch; other site 509169008373 thioester region; other site 509169008374 specificity defining residues; other site 509169008375 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cd00455 509169008376 active site 509169008377 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 509169008378 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169008379 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 509169008380 PrpF protein; Region: PrpF; pfam04303 509169008381 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 509169008382 Uncharacterised protein family (UPF0156); Region: RHH_2; cl01448 509169008383 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 509169008384 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 509169008385 substrate binding site [chemical binding]; other site 509169008386 ligand binding site [chemical binding]; other site 509169008387 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 509169008388 substrate binding site [chemical binding]; other site 509169008389 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 509169008390 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 (CS)...; Region: Ec2MCS_like_1; cd06117 509169008391 dimer interface [polypeptide binding]; other site 509169008392 active site 509169008393 citrylCoA binding site [chemical binding]; other site 509169008394 oxalacetate/citrate binding site [chemical binding]; other site 509169008395 coenzyme A binding site [chemical binding]; other site 509169008396 catalytic triad [active] 509169008397 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 509169008398 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 509169008399 tetramer interface [polypeptide binding]; other site 509169008400 active site 509169008401 Mg2+/Mn2+ binding site [ion binding]; other site 509169008402 propionate catabolism operon regulatory protein PrpR; Provisional; Region: PRK15424 509169008403 Propionate catabolism activator; Region: PrpR_N; pfam06506 509169008404 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 509169008405 Walker A motif; other site 509169008406 ATP binding site [chemical binding]; other site 509169008407 Walker B motif; other site 509169008408 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169008409 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 509169008410 peptide chain release factor 2; Validated; Region: prfB; PRK00578 509169008411 Bacteriophage lambda tail assembly protein I; Region: Lambda_tail_I; cl01945 509169008412 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 509169008413 PilZ domain; Region: PilZ; cl01260 509169008414 DNA polymerase III subunit delta'; Validated; Region: PRK08769 509169008415 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169008416 YceG-like family; Region: YceG; pfam02618 509169008417 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 509169008418 dimerization interface [polypeptide binding]; other site 509169008419 hypothetical protein; Validated; Region: PRK09070 509169008420 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 509169008421 chorismate binding enzyme; Region: Chorismate_bind; cl10555 509169008422 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 509169008423 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 509169008424 dimer interface [polypeptide binding]; other site 509169008425 active site 509169008426 Phosphopantetheine attachment site; Region: PP-binding; cl09936 509169008427 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 509169008428 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 509169008429 NAD(P) binding site [chemical binding]; other site 509169008430 homotetramer interface [polypeptide binding]; other site 509169008431 homodimer interface [polypeptide binding]; other site 509169008432 active site 509169008433 Acyl transferase domain; Region: Acyl_transf_1; cl08282 509169008434 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 509169008435 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 509169008436 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 509169008437 dimer interface [polypeptide binding]; other site 509169008438 active site 509169008439 CoA binding pocket [chemical binding]; other site 509169008440 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 509169008441 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 509169008442 Maf-like protein; Region: Maf; pfam02545 509169008443 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 509169008444 active site 509169008445 dimer interface [polypeptide binding]; other site 509169008446 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 509169008447 active site 509169008448 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 509169008449 MoxR-like ATPases [General function prediction only]; Region: COG0714 509169008450 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 509169008451 Walker A motif; other site 509169008452 ATP binding site [chemical binding]; other site 509169008453 Walker B motif; other site 509169008454 arginine finger; other site 509169008455 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 509169008456 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 509169008457 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 509169008458 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 509169008459 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 509169008460 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 509169008461 nucleotide binding site/active site [active] 509169008462 HIT family signature motif; other site 509169008463 catalytic residue [active] 509169008464 recombination protein RecR; Reviewed; Region: recR; PRK00076 509169008465 RecR protein; Region: RecR; pfam02132 509169008466 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 509169008467 putative active site [active] 509169008468 putative metal-binding site [ion binding]; other site 509169008469 tetramer interface [polypeptide binding]; other site 509169008470 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 509169008471 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 509169008472 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 509169008473 Walker A motif; other site 509169008474 ATP binding site [chemical binding]; other site 509169008475 Walker B motif; other site 509169008476 arginine finger; other site 509169008477 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 509169008478 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 509169008479 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 509169008480 MoaE homodimer interface [polypeptide binding]; other site 509169008481 MoaD interaction [polypeptide binding]; other site 509169008482 active site residues [active] 509169008483 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 509169008484 MoaE interaction surface [polypeptide binding]; other site 509169008485 MoeB interaction surface [polypeptide binding]; other site 509169008486 thiocarboxylated glycine; other site 509169008487 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 509169008488 trimer interface [polypeptide binding]; other site 509169008489 dimer interface [polypeptide binding]; other site 509169008490 putative active site [active] 509169008491 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 509169008492 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 509169008493 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 509169008494 FeS/SAM binding site; other site 509169008495 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 509169008496 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 509169008497 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 509169008498 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 509169008499 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 509169008500 putative active site [active] 509169008501 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 509169008502 Protein phosphatase 2C; Region: PP2C; pfam00481 509169008503 active site 509169008504 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 509169008505 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 509169008506 active site 509169008507 substrate binding site [chemical binding]; other site 509169008508 catalytic site [active] 509169008509 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 509169008510 RNA/DNA hybrid binding site [nucleotide binding]; other site 509169008511 active site 509169008512 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 509169008513 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 509169008514 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 509169008515 N-acetyl-D-glucosamine binding site [chemical binding]; other site 509169008516 catalytic residue [active] 509169008517 invasion associated secreted endopeptidase; Provisional; Region: PRK13914 509169008518 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 509169008519 putative peptidoglycan binding site; other site 509169008520 periplasmic folding chaperone; Provisional; Region: PRK10788 509169008521 PPIC-type PPIASE domain; Region: Rotamase; cl08278 509169008522 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 509169008523 IHF dimer interface [polypeptide binding]; other site 509169008524 IHF - DNA interface [nucleotide binding]; other site 509169008525 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 509169008526 Found in ATP-dependent protease La (LON); Region: LON; smart00464 509169008527 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 509169008528 Walker A motif; other site 509169008529 ATP binding site [chemical binding]; other site 509169008530 Walker B motif; other site 509169008531 arginine finger; other site 509169008532 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 509169008533 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 509169008534 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 509169008535 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 509169008536 Walker A motif; other site 509169008537 ATP binding site [chemical binding]; other site 509169008538 Walker B motif; other site 509169008539 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 509169008540 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 509169008541 oligomer interface [polypeptide binding]; other site 509169008542 active site residues [active] 509169008543 trigger factor; Provisional; Region: tig; PRK01490 509169008544 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 509169008545 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 509169008546 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 509169008547 tartrate dehydrogenase; Provisional; Region: PRK08194 509169008548 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 509169008549 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 509169008550 GSH binding site [chemical binding]; other site 509169008551 catalytic residues [active] 509169008552 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 509169008553 Peptidase family M48; Region: Peptidase_M48; cl12018 509169008554 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 509169008555 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 509169008556 active site 509169008557 phosphorylation site [posttranslational modification] 509169008558 intermolecular recognition site; other site 509169008559 dimerization interface [polypeptide binding]; other site 509169008560 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 509169008561 DNA binding site [nucleotide binding] 509169008562 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 509169008563 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 509169008564 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169008565 dimer interface [polypeptide binding]; other site 509169008566 phosphorylation site [posttranslational modification] 509169008567 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 509169008568 ATP binding site [chemical binding]; other site 509169008569 Mg2+ binding site [ion binding]; other site 509169008570 G-X-G motif; other site 509169008571 polyphosphate kinase; Provisional; Region: PRK05443 509169008572 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 509169008573 putative domain interface [polypeptide binding]; other site 509169008574 putative active site [active] 509169008575 catalytic site [active] 509169008576 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 509169008577 putative domain interface [polypeptide binding]; other site 509169008578 putative active site [active] 509169008579 catalytic site [active] 509169008580 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 509169008581 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 509169008582 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 509169008583 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 509169008584 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 509169008585 active site 509169008586 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 509169008587 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 509169008588 putative active site [active] 509169008589 putative metal binding site [ion binding]; other site 509169008590 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 509169008591 dinuclear metal binding motif [ion binding]; other site 509169008592 amidophosphoribosyltransferase; Provisional; Region: PRK09246 509169008593 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 509169008594 active site 509169008595 tetramer interface [polypeptide binding]; other site 509169008596 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 509169008597 Colicin V production protein; Region: Colicin_V; cl00567 509169008598 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 509169008599 Sporulation related domain; Region: SPOR; cl10051 509169008600 Sporulation related domain; Region: SPOR; cl10051 509169008601 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 509169008602 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 509169008603 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 509169008604 catalytic core [active] 509169008605 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 509169008606 Phosphoesterase family; Region: Phosphoesterase; cl15450 509169008607 Domain of unknown function (DUF756); Region: DUF756; pfam05506 509169008608 Domain of unknown function (DUF756); Region: DUF756; pfam05506 509169008609 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 509169008610 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 509169008611 N-terminal plug; other site 509169008612 ligand-binding site [chemical binding]; other site 509169008613 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 509169008614 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 509169008615 NAD(P) binding site [chemical binding]; other site 509169008616 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 509169008617 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 509169008618 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...; Region: ABC_CysA_sulfate_importer; cd03296 509169008619 Walker A/P-loop; other site 509169008620 ATP binding site [chemical binding]; other site 509169008621 Q-loop/lid; other site 509169008622 ABC transporter signature motif; other site 509169008623 Walker B; other site 509169008624 D-loop; other site 509169008625 H-loop/switch region; other site 509169008626 TOBE domain; Region: TOBE_2; cl01440 509169008627 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 509169008628 dimer interface [polypeptide binding]; other site 509169008629 conserved gate region; other site 509169008630 putative PBP binding loops; other site 509169008631 ABC-ATPase subunit interface; other site 509169008632 sulfate ABC transporter, permease protein CysT; Region: permease_CysT; TIGR02139 509169008633 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 509169008634 dimer interface [polypeptide binding]; other site 509169008635 conserved gate region; other site 509169008636 putative PBP binding loops; other site 509169008637 ABC-ATPase subunit interface; other site 509169008638 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 509169008639 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 509169008640 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 509169008641 substrate-cofactor binding pocket; other site 509169008642 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169008643 catalytic residue [active] 509169008644 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 509169008645 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 509169008646 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 509169008647 RNA binding surface [nucleotide binding]; other site 509169008648 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 509169008649 active site 509169008650 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 509169008651 ligand binding site [chemical binding]; other site 509169008652 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 509169008653 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 509169008654 putative NAD(P) binding site [chemical binding]; other site 509169008655 dimer interface [polypeptide binding]; other site 509169008656 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 509169008657 mycofactocin system FadH/OYE family oxidoreductase 1; Region: mycofact_OYE_1; TIGR03996 509169008658 active site 509169008659 FMN binding site [chemical binding]; other site 509169008660 2,4-decadienoyl-CoA binding site; other site 509169008661 catalytic residue [active] 509169008662 4Fe-4S cluster binding site [ion binding]; other site 509169008663 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 509169008664 glutathionine S-transferase; Provisional; Region: PRK10542 509169008665 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 509169008666 C-terminal domain interface [polypeptide binding]; other site 509169008667 GSH binding site (G-site) [chemical binding]; other site 509169008668 dimer interface [polypeptide binding]; other site 509169008669 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 509169008670 dimer interface [polypeptide binding]; other site 509169008671 N-terminal domain interface [polypeptide binding]; other site 509169008672 substrate binding pocket (H-site) [chemical binding]; other site 509169008673 malate dehydrogenase; Provisional; Region: PRK05442 509169008674 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 509169008675 NAD(P) binding site [chemical binding]; other site 509169008676 dimer interface [polypeptide binding]; other site 509169008677 malate binding site [chemical binding]; other site 509169008678 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 509169008679 active site 509169008680 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 509169008681 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 509169008682 G1 box; other site 509169008683 putative GEF interaction site [polypeptide binding]; other site 509169008684 GTP/Mg2+ binding site [chemical binding]; other site 509169008685 Switch I region; other site 509169008686 G2 box; other site 509169008687 G3 box; other site 509169008688 Switch II region; other site 509169008689 G4 box; other site 509169008690 G5 box; other site 509169008691 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 509169008692 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 509169008693 Predicted membrane protein (DUF2127); Region: DUF2127; cl01785 509169008694 amidase; Provisional; Region: PRK08137 509169008695 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; cl11426 509169008696 Mechanosensitive ion channel; Region: MS_channel; pfam00924 509169008697 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 509169008698 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 509169008699 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 509169008700 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 509169008701 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 509169008702 alphaNTD homodimer interface [polypeptide binding]; other site 509169008703 alphaNTD - beta interaction site [polypeptide binding]; other site 509169008704 alphaNTD - beta' interaction site [polypeptide binding]; other site 509169008705 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 509169008706 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 509169008707 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 509169008708 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 509169008709 RNA binding surface [nucleotide binding]; other site 509169008710 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 509169008711 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 509169008712 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 509169008713 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 509169008714 SecY translocase; Region: SecY; pfam00344 509169008715 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 509169008716 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 509169008717 23S rRNA binding site [nucleotide binding]; other site 509169008718 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 509169008719 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 509169008720 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 509169008721 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 509169008722 5S rRNA interface [nucleotide binding]; other site 509169008723 23S rRNA interface [nucleotide binding]; other site 509169008724 L5 interface [polypeptide binding]; other site 509169008725 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 509169008726 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 509169008727 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 509169008728 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 509169008729 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 509169008730 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 509169008731 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 509169008732 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 509169008733 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 509169008734 KOW motif; Region: KOW; cl00354 509169008735 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 509169008736 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 509169008737 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 509169008738 putative translocon interaction site; other site 509169008739 23S rRNA interface [nucleotide binding]; other site 509169008740 signal recognition particle (SRP54) interaction site; other site 509169008741 L23 interface [polypeptide binding]; other site 509169008742 trigger factor interaction site; other site 509169008743 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 509169008744 23S rRNA interface [nucleotide binding]; other site 509169008745 5S rRNA interface [nucleotide binding]; other site 509169008746 putative antibiotic binding site [chemical binding]; other site 509169008747 L25 interface [polypeptide binding]; other site 509169008748 L27 interface [polypeptide binding]; other site 509169008749 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 509169008750 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 509169008751 G-X-X-G motif; other site 509169008752 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 509169008753 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 509169008754 putative translocon binding site; other site 509169008755 protein-rRNA interface [nucleotide binding]; other site 509169008756 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 509169008757 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 509169008758 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 509169008759 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 509169008760 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 509169008761 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 509169008762 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 509169008763 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 509169008764 elongation factor Tu; Reviewed; Region: PRK00049 509169008765 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 509169008766 G1 box; other site 509169008767 GEF interaction site [polypeptide binding]; other site 509169008768 GTP/Mg2+ binding site [chemical binding]; other site 509169008769 Switch I region; other site 509169008770 G2 box; other site 509169008771 G3 box; other site 509169008772 Switch II region; other site 509169008773 G4 box; other site 509169008774 G5 box; other site 509169008775 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 509169008776 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 509169008777 Antibiotic Binding Site [chemical binding]; other site 509169008778 elongation factor G; Reviewed; Region: PRK00007 509169008779 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 so...; Region: EF-G; cd01886 509169008780 G1 box; other site 509169008781 putative GEF interaction site [polypeptide binding]; other site 509169008782 GTP/Mg2+ binding site [chemical binding]; other site 509169008783 Switch I region; other site 509169008784 G2 box; other site 509169008785 G3 box; other site 509169008786 Switch II region; other site 509169008787 G4 box; other site 509169008788 G5 box; other site 509169008789 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 509169008790 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 509169008791 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 509169008792 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 509169008793 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 509169008794 S17 interaction site [polypeptide binding]; other site 509169008795 S8 interaction site; other site 509169008796 16S rRNA interaction site [nucleotide binding]; other site 509169008797 streptomycin interaction site [chemical binding]; other site 509169008798 23S rRNA interaction site [nucleotide binding]; other site 509169008799 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 509169008800 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 509169008801 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 509169008802 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 509169008803 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 509169008804 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 509169008805 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 509169008806 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 509169008807 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 509169008808 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 509169008809 DNA binding site [nucleotide binding] 509169008810 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 509169008811 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 509169008812 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 509169008813 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 509169008814 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 509169008815 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 509169008816 RPB11 interaction site [polypeptide binding]; other site 509169008817 RPB12 interaction site [polypeptide binding]; other site 509169008818 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 509169008819 RPB3 interaction site [polypeptide binding]; other site 509169008820 RPB1 interaction site [polypeptide binding]; other site 509169008821 RPB11 interaction site [polypeptide binding]; other site 509169008822 RPB10 interaction site [polypeptide binding]; other site 509169008823 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 509169008824 core dimer interface [polypeptide binding]; other site 509169008825 peripheral dimer interface [polypeptide binding]; other site 509169008826 L10 interface [polypeptide binding]; other site 509169008827 L11 interface [polypeptide binding]; other site 509169008828 putative EF-Tu interaction site [polypeptide binding]; other site 509169008829 putative EF-G interaction site [polypeptide binding]; other site 509169008830 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 509169008831 23S rRNA interface [nucleotide binding]; other site 509169008832 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 509169008833 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 509169008834 mRNA/rRNA interface [nucleotide binding]; other site 509169008835 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 509169008836 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 509169008837 23S rRNA interface [nucleotide binding]; other site 509169008838 L7/L12 interface [polypeptide binding]; other site 509169008839 putative thiostrepton binding site; other site 509169008840 L25 interface [polypeptide binding]; other site 509169008841 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 509169008842 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 509169008843 putative homodimer interface [polypeptide binding]; other site 509169008844 KOW motif; Region: KOW; cl00354 509169008845 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 509169008846 elongation factor Tu; Reviewed; Region: PRK00049 509169008847 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 509169008848 G1 box; other site 509169008849 GEF interaction site [polypeptide binding]; other site 509169008850 GTP/Mg2+ binding site [chemical binding]; other site 509169008851 Switch I region; other site 509169008852 G2 box; other site 509169008853 G3 box; other site 509169008854 Switch II region; other site 509169008855 G4 box; other site 509169008856 G5 box; other site 509169008857 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 509169008858 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 509169008859 Antibiotic Binding Site [chemical binding]; other site 509169008860 GTP-binding protein YchF; Reviewed; Region: PRK09601 509169008861 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 509169008862 G1 box; other site 509169008863 GTP/Mg2+ binding site [chemical binding]; other site 509169008864 Switch I region; other site 509169008865 G2 box; other site 509169008866 Switch II region; other site 509169008867 G3 box; other site 509169008868 G4 box; other site 509169008869 G5 box; other site 509169008870 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 509169008871 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 509169008872 putative active site [active] 509169008873 catalytic residue [active] 509169008874 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 509169008875 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 509169008876 5S rRNA interface [nucleotide binding]; other site 509169008877 CTC domain interface [polypeptide binding]; other site 509169008878 L16 interface [polypeptide binding]; other site 509169008879 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK04923 509169008880 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 509169008881 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 509169008882 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 509169008883 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 509169008884 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 509169008885 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 509169008886 binding surface 509169008887 TPR motif; other site 509169008888 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 509169008889 binding surface 509169008890 TPR motif; other site 509169008891 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 509169008892 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 509169008893 tRNA; other site 509169008894 putative tRNA binding site [nucleotide binding]; other site 509169008895 putative NADP binding site [chemical binding]; other site 509169008896 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 509169008897 peptide chain release factor 1; Validated; Region: prfA; PRK00591 509169008898 RF-1 domain; Region: RF-1; cl02875 509169008899 RF-1 domain; Region: RF-1; cl02875 509169008900 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 509169008901 TPR motif; other site 509169008902 binding surface 509169008903 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 509169008904 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 509169008905 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 509169008906 MPT binding site; other site 509169008907 trimer interface [polypeptide binding]; other site 509169008908 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 509169008909 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 509169008910 MPT binding site; other site 509169008911 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 509169008912 Acylphosphatase; Region: Acylphosphatase; cl00551 509169008913 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 509169008914 catalytic residues [active] 509169008915 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 509169008916 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 509169008917 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 509169008918 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 509169008919 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 509169008920 active site 509169008921 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 509169008922 putative deacylase active site [active] 509169008923 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 509169008924 active site 509169008925 catalytic triad [active] 509169008926 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 509169008927 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 509169008928 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 509169008929 active site 509169008930 catalytic triad [active] 509169008931 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 509169008932 active site 509169008933 catalytic triad [active] 509169008934 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 509169008935 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 509169008936 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 509169008937 homodimer interface [polypeptide binding]; other site 509169008938 substrate-cofactor binding pocket; other site 509169008939 catalytic residue [active] 509169008940 Domain of unknown function DUF59; Region: DUF59; cl00941 509169008941 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 509169008942 RNA polymerase factor sigma-70; Validated; Region: PRK09047 509169008943 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 509169008944 DNA binding residues [nucleotide binding] 509169008945 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 509169008946 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 509169008947 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 509169008948 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 509169008949 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 509169008950 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 509169008951 putative FMN binding site [chemical binding]; other site 509169008952 5'-3' exonuclease; Region: 53EXOc; smart00475 509169008953 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 509169008954 active site 509169008955 metal binding site 1 [ion binding]; metal-binding site 509169008956 putative 5' ssDNA interaction site; other site 509169008957 metal binding site 3; metal-binding site 509169008958 metal binding site 2 [ion binding]; metal-binding site 509169008959 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 509169008960 putative DNA binding site [nucleotide binding]; other site 509169008961 putative metal binding site [ion binding]; other site 509169008962 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 509169008963 ADP-ribose binding site [chemical binding]; other site 509169008964 dimer interface [polypeptide binding]; other site 509169008965 active site 509169008966 nudix motif; other site 509169008967 metal binding site [ion binding]; metal-binding site 509169008968 N-formylglutamate amidohydrolase; Region: FGase; cl01522 509169008969 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 509169008970 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 509169008971 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 509169008972 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 509169008973 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 509169008974 peroxiredoxin; Region: AhpC; TIGR03137 509169008975 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 509169008976 dimer interface [polypeptide binding]; other site 509169008977 decamer (pentamer of dimers) interface [polypeptide binding]; other site 509169008978 catalytic triad [active] 509169008979 peroxidatic and resolving cysteines [active] 509169008980 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 509169008981 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 509169008982 catalytic residue [active] 509169008983 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 509169008984 catalytic residues [active] 509169008985 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169008986 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 509169008987 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169008988 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 509169008989 dimerization interface [polypeptide binding]; other site 509169008990 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 509169008991 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 509169008992 transaldolase-like protein; Provisional; Region: PTZ00411 509169008993 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 509169008994 active site 509169008995 dimer interface [polypeptide binding]; other site 509169008996 catalytic residue [active] 509169008997 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_3; cd03140 509169008998 conserved cys residue [active] 509169008999 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 509169009000 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 509169009001 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 509169009002 DNA binding residues [nucleotide binding] 509169009003 dimerization interface [polypeptide binding]; other site 509169009004 CHASE3 domain; Region: CHASE3; cl05000 509169009005 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 509169009006 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169009007 dimer interface [polypeptide binding]; other site 509169009008 phosphorylation site [posttranslational modification] 509169009009 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 509169009010 ATP binding site [chemical binding]; other site 509169009011 Mg2+ binding site [ion binding]; other site 509169009012 G-X-G motif; other site 509169009013 Response regulator receiver domain; Region: Response_reg; pfam00072 509169009014 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 509169009015 active site 509169009016 phosphorylation site [posttranslational modification] 509169009017 intermolecular recognition site; other site 509169009018 dimerization interface [polypeptide binding]; other site 509169009019 Response regulator receiver domain; Region: Response_reg; pfam00072 509169009020 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 509169009021 active site 509169009022 phosphorylation site [posttranslational modification] 509169009023 intermolecular recognition site; other site 509169009024 dimerization interface [polypeptide binding]; other site 509169009025 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 509169009026 putative C-terminal domain interface [polypeptide binding]; other site 509169009027 putative GSH binding site (G-site) [chemical binding]; other site 509169009028 putative dimer interface [polypeptide binding]; other site 509169009029 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 509169009030 putative N-terminal domain interface [polypeptide binding]; other site 509169009031 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 509169009032 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 509169009033 active site 509169009034 HIGH motif; other site 509169009035 nucleotide binding site [chemical binding]; other site 509169009036 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 509169009037 active site 509169009038 KMSKS motif; other site 509169009039 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 509169009040 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 509169009041 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 509169009042 Secretin and TonB N terminus short domain; Region: STN; cl06624 509169009043 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 509169009044 nucleoside/Zn binding site; other site 509169009045 dimer interface [polypeptide binding]; other site 509169009046 catalytic motif [active] 509169009047 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 509169009048 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 509169009049 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 509169009050 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169009051 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 509169009052 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 509169009053 Transcriptional regulators [Transcription]; Region: MarR; COG1846 509169009054 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169009055 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 509169009056 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 509169009057 substrate binding site [chemical binding]; other site 509169009058 oxyanion hole (OAH) forming residues; other site 509169009059 trimer interface [polypeptide binding]; other site 509169009060 Mycobacterium tuberculosis aldehyde dehydrogenase AldA-like; Region: ALDH_AldA-Rv0768; cd07139 509169009061 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 509169009062 NAD binding site [chemical binding]; other site 509169009063 catalytic residues [active] 509169009064 acyl-CoA synthetase; Validated; Region: PRK09088 509169009065 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 509169009066 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 509169009067 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169009068 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 509169009069 dimerization interface [polypeptide binding]; other site 509169009070 The C-terminal domain of Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_dioxygenase_C; cd07923 509169009071 putative dimer interface [polypeptide binding]; other site 509169009072 putative N- and C-terminal domain interface [polypeptide binding]; other site 509169009073 The N-terminal domain of the Class III extradiol dioxygenase, Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate; Region: Gallate_Doxase_N; cd07950 509169009074 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 509169009075 putative active site [active] 509169009076 Fe(II) binding site [ion binding]; other site 509169009077 putative dimer interface [polypeptide binding]; other site 509169009078 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 509169009079 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 509169009080 DNA-binding site [nucleotide binding]; DNA binding site 509169009081 FCD domain; Region: FCD; cl11656 509169009082 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 509169009083 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 509169009084 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Validated; Region: PRK08773 509169009085 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169009086 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 509169009087 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169009088 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 509169009089 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 509169009090 organic solvent tolerance protein; Provisional; Region: PRK04423 509169009091 Organic solvent tolerance protein; Region: OstA_C; pfam04453 509169009092 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 509169009093 SurA N-terminal domain; Region: SurA_N; pfam09312 509169009094 PPIC-type PPIASE domain; Region: Rotamase; cl08278 509169009095 PPIC-type PPIASE domain; Region: Rotamase; cl08278 509169009096 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 509169009097 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 509169009098 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 509169009099 Protein of unknown function (DUF525); Region: DUF525; cl01119 509169009100 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 509169009101 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 509169009102 active site 509169009103 metal binding site [ion binding]; metal-binding site 509169009104 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 509169009105 folate binding site [chemical binding]; other site 509169009106 NADP+ binding site [chemical binding]; other site 509169009107 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 509169009108 dimerization interface [polypeptide binding]; other site 509169009109 active site 509169009110 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 509169009111 Domain of unknown function (DUF477); Region: DUF477; cl01535 509169009112 Domain of unknown function (DUF477); Region: DUF477; cl01535 509169009113 LemA family; Region: LemA; cl00742 509169009114 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 509169009115 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_7; cd04502 509169009116 active site 509169009117 catalytic triad [active] 509169009118 oxyanion hole [active] 509169009119 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 509169009120 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169009121 dimer interface [polypeptide binding]; other site 509169009122 phosphorylation site [posttranslational modification] 509169009123 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 509169009124 ATP binding site [chemical binding]; other site 509169009125 Mg2+ binding site [ion binding]; other site 509169009126 G-X-G motif; other site 509169009127 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 509169009128 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 509169009129 active site 509169009130 phosphorylation site [posttranslational modification] 509169009131 intermolecular recognition site; other site 509169009132 dimerization interface [polypeptide binding]; other site 509169009133 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 509169009134 DNA binding site [nucleotide binding] 509169009135 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 509169009136 active site 509169009137 catalytic triad [active] 509169009138 oxyanion hole [active] 509169009139 switch loop; other site 509169009140 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 509169009141 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 509169009142 Walker A/P-loop; other site 509169009143 ATP binding site [chemical binding]; other site 509169009144 Q-loop/lid; other site 509169009145 ABC transporter signature motif; other site 509169009146 Walker B; other site 509169009147 D-loop; other site 509169009148 H-loop/switch region; other site 509169009149 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 509169009150 FtsX-like permease family; Region: FtsX; pfam02687 509169009151 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 509169009152 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 509169009153 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 509169009154 NMT1/THI5 like; Region: NMT1; pfam09084 509169009155 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 509169009156 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 509169009157 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 509169009158 Walker A/P-loop; other site 509169009159 ATP binding site [chemical binding]; other site 509169009160 Q-loop/lid; other site 509169009161 ABC transporter signature motif; other site 509169009162 Walker B; other site 509169009163 D-loop; other site 509169009164 H-loop/switch region; other site 509169009165 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 509169009166 Protein of unknown function, DUF486; Region: DUF486; cl01236 509169009167 ChuX-like family; Region: DUF1008; cl01509 509169009168 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 509169009169 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 509169009170 N-terminal plug; other site 509169009171 ligand-binding site [chemical binding]; other site 509169009172 Hemin uptake protein hemP; Region: hemP; cl10043 509169009173 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 509169009174 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 509169009175 active site 509169009176 catalytic tetrad [active] 509169009177 nucleoside transporter; Region: nupC; TIGR00804 509169009178 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 509169009179 Nucleoside recognition; Region: Gate; cl00486 509169009180 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 509169009181 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 509169009182 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 509169009183 substrate binding site [chemical binding]; other site 509169009184 dimer interface [polypeptide binding]; other site 509169009185 ATP binding site [chemical binding]; other site 509169009186 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 509169009187 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 509169009188 FMN binding site [chemical binding]; other site 509169009189 active site 509169009190 catalytic residues [active] 509169009191 substrate binding site [chemical binding]; other site 509169009192 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 509169009193 S-adenosylmethionine synthetase; Validated; Region: PRK05250 509169009194 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 509169009195 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 509169009196 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 509169009197 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 509169009198 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 509169009199 catalytic core [active] 509169009200 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 509169009201 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169009202 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169009203 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 509169009204 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 509169009205 ligand binding site [chemical binding]; other site 509169009206 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 509169009207 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169009208 Phosphoenolpyruvate carboxylase [Carbohydrate transport and metabolism; Energy production and conversion]; Region: COG1892; cl14656 509169009209 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 509169009210 translocation protein TolB; Provisional; Region: tolB; PRK03629 509169009211 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 509169009212 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 509169009213 Adenosylhomocysteinase; Provisional; Region: PTZ00075 509169009214 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 509169009215 oligomerization interface [polypeptide binding]; other site 509169009216 active site 509169009217 NAD+ binding site [chemical binding]; other site 509169009218 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 509169009219 Predicted membrane protein (DUF2078); Region: DUF2078; cl01373 509169009220 Protein of unknown function (DUF3228); Region: DUF3228; pfam11539 509169009221 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 509169009222 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 509169009223 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 509169009224 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 509169009225 catalytic core [active] 509169009226 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 509169009227 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169009228 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 509169009229 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 509169009230 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 509169009231 NAD(P) binding site [chemical binding]; other site 509169009232 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 509169009233 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 509169009234 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 509169009235 FAD binding site [chemical binding]; other site 509169009236 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169009237 active site 509169009238 hypothetical protein; Provisional; Region: PRK08999 509169009239 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 509169009240 active site 509169009241 8-oxo-dGMP binding site [chemical binding]; other site 509169009242 nudix motif; other site 509169009243 metal binding site [ion binding]; metal-binding site 509169009244 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 509169009245 thiamine phosphate binding site [chemical binding]; other site 509169009246 active site 509169009247 pyrophosphate binding site [ion binding]; other site 509169009248 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_17; cd08356 509169009249 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 509169009250 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169009251 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 509169009252 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 509169009253 nucleotide binding region [chemical binding]; other site 509169009254 ATP-binding site [chemical binding]; other site 509169009255 hypothetical protein; Provisional; Region: PRK02250 509169009256 SEC-C motif; Region: SEC-C; pfam02810 509169009257 Peptidase family M23; Region: Peptidase_M23; pfam01551 509169009258 Protein of unknown function (DUF721); Region: DUF721; cl02324 509169009259 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 509169009260 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 509169009261 cell division protein FtsZ; Validated; Region: PRK09330 509169009262 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 509169009263 nucleotide binding site [chemical binding]; other site 509169009264 SulA interaction site; other site 509169009265 cell division protein FtsA; Region: ftsA; TIGR01174 509169009266 Cell division protein FtsA; Region: FtsA; cl11496 509169009267 Cell division protein FtsA; Region: FtsA; cl11496 509169009268 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 509169009269 Cell division protein FtsQ; Region: FtsQ; pfam03799 509169009270 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 509169009271 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 509169009272 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 509169009273 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 509169009274 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 509169009275 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 509169009276 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 509169009277 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 509169009278 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 509169009279 active site 509169009280 homodimer interface [polypeptide binding]; other site 509169009281 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 509169009282 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 509169009283 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 509169009284 Mg++ binding site [ion binding]; other site 509169009285 putative catalytic motif [active] 509169009286 putative substrate binding site [chemical binding]; other site 509169009287 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 509169009288 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 509169009289 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 509169009290 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 509169009291 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 509169009292 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 509169009293 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 509169009294 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 509169009295 Septum formation initiator; Region: DivIC; cl11433 509169009296 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 509169009297 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 509169009298 cell division protein MraZ; Reviewed; Region: PRK00326 509169009299 MraZ protein; Region: MraZ; pfam02381 509169009300 MraZ protein; Region: MraZ; pfam02381 509169009301 Protein of unknown function (DUF833); Region: DUF833; cl01315 509169009302 Post-segregation antitoxin CcdA; Region: CcdA; cl02188 509169009303 CcdB protein; Region: CcdB; cl03380 509169009304 Predicted methyltransferases [General function prediction only]; Region: COG0313 509169009305 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 509169009306 LppC putative lipoprotein; Region: LppC; pfam04348 509169009307 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 509169009308 putative ligand binding site [chemical binding]; other site 509169009309 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 509169009310 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 509169009311 FAD binding domain; Region: FAD_binding_4; pfam01565 509169009312 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 509169009313 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 509169009314 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 509169009315 active site 509169009316 phosphorylation site [posttranslational modification] 509169009317 intermolecular recognition site; other site 509169009318 dimerization interface [polypeptide binding]; other site 509169009319 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 509169009320 DNA binding site [nucleotide binding] 509169009321 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 509169009322 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 509169009323 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 509169009324 Ligand Binding Site [chemical binding]; other site 509169009325 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169009326 dimer interface [polypeptide binding]; other site 509169009327 phosphorylation site [posttranslational modification] 509169009328 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 509169009329 ATP binding site [chemical binding]; other site 509169009330 Mg2+ binding site [ion binding]; other site 509169009331 G-X-G motif; other site 509169009332 K+-transporting ATPase, c chain; Region: KdpC; cl00944 509169009333 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 509169009334 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 509169009335 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 509169009336 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 509169009337 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 509169009338 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 509169009339 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 509169009340 ATP binding site [chemical binding]; other site 509169009341 dimerization interface [polypeptide binding]; other site 509169009342 thiamine monophosphate kinase; Provisional; Region: PRK05731 509169009343 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 509169009344 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 509169009345 homopentamer interface [polypeptide binding]; other site 509169009346 active site 509169009347 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 509169009348 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 509169009349 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; cl00522 509169009350 dimerization interface [polypeptide binding]; other site 509169009351 active site 509169009352 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 509169009353 Lumazine binding domain; Region: Lum_binding; pfam00677 509169009354 Lumazine binding domain; Region: Lum_binding; pfam00677 509169009355 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 509169009356 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 509169009357 catalytic motif [active] 509169009358 Zn binding site [ion binding]; other site 509169009359 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 509169009360 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 509169009361 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 509169009362 Coenzyme A binding pocket [chemical binding]; other site 509169009363 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 509169009364 ATP cone domain; Region: ATP-cone; pfam03477 509169009365 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 509169009366 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 509169009367 dimer interface [polypeptide binding]; other site 509169009368 glycine-pyridoxal phosphate binding site [chemical binding]; other site 509169009369 active site 509169009370 folate binding site [chemical binding]; other site 509169009371 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 509169009372 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 509169009373 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169009374 Walker A/P-loop; other site 509169009375 ATP binding site [chemical binding]; other site 509169009376 Q-loop/lid; other site 509169009377 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 facilitated...; Region: ABCF_EF-3; cd03221 509169009378 ABC transporter signature motif; other site 509169009379 Walker B; other site 509169009380 D-loop; other site 509169009381 ABC transporter; Region: ABC_tran_2; pfam12848 509169009382 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 facilitated...; Region: ABCF_EF-3; cd03221 509169009383 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 509169009384 active site 509169009385 catalytic residues [active] 509169009386 metal binding site [ion binding]; metal-binding site 509169009387 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 509169009388 ArsC family; Region: ArsC; pfam03960 509169009389 catalytic residues [active] 509169009390 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 509169009391 PA/protease or protease-like domain interface [polypeptide binding]; other site 509169009393 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 509169009394 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 509169009395 active site 509169009396 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 509169009397 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 509169009398 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 509169009399 DXD motif; other site 509169009400 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 509169009401 Probable Catalytic site; other site 509169009402 metal-binding site 509169009403 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 509169009404 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 509169009405 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 509169009406 N-terminal plug; other site 509169009407 ligand-binding site [chemical binding]; other site 509169009408 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 509169009409 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 509169009410 DNA-binding site [nucleotide binding]; DNA binding site 509169009411 transcriptional regulator protein; Region: phnR; TIGR03337 509169009412 UTRA domain; Region: UTRA; cl01230 509169009413 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 509169009414 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 509169009415 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 509169009416 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 509169009417 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 509169009418 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 509169009419 General secretion pathway protein M; Region: GspM_II; pfam10741 509169009420 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 509169009421 General secretion pathway protein K; Region: GspK; pfam03934 509169009422 general secretion pathway protein J; Validated; Region: PRK08808 509169009423 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 509169009424 Bacterial type II secretion system protein G; Region: GSPII_G; pfam08334 509169009425 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 509169009426 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 509169009427 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 509169009428 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 509169009429 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 509169009430 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 509169009431 Walker A motif; other site 509169009432 ATP binding site [chemical binding]; other site 509169009433 Walker B motif; other site 509169009434 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 509169009435 active site 509169009436 catalytic triad [active] 509169009437 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 509169009438 Haemagglutinin; Region: HIM; pfam05662 509169009439 Haemagglutinin; Region: HIM; pfam05662 509169009440 YadA-like C-terminal region; Region: YadA; pfam03895 509169009441 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 509169009442 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 509169009443 dimerization interface [polypeptide binding]; other site 509169009444 ATP binding site [chemical binding]; other site 509169009445 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 509169009446 dimerization interface [polypeptide binding]; other site 509169009447 ATP binding site [chemical binding]; other site 509169009448 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 509169009449 putative active site [active] 509169009450 catalytic triad [active] 509169009451 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 509169009452 dimerization domain [polypeptide binding]; other site 509169009453 dimer interface [polypeptide binding]; other site 509169009454 catalytic residues [active] 509169009455 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 509169009456 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 509169009457 DNA binding site [nucleotide binding] 509169009458 Int/Topo IB signature motif; other site 509169009459 active site 509169009460 RDD family; Region: RDD; cl00746 509169009461 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 509169009462 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 509169009463 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 509169009464 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 509169009465 multifunctional aminopeptidase A; Provisional; Region: PRK00913 509169009466 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 509169009467 interface (dimer of trimers) [polypeptide binding]; other site 509169009468 Substrate-binding/catalytic site; other site 509169009469 Zn-binding sites [ion binding]; other site 509169009470 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 509169009471 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169009472 Predicted ATPase [General function prediction only]; Region: COG4637 509169009473 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 509169009474 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 509169009475 active site 509169009476 HIGH motif; other site 509169009477 nucleotide binding site [chemical binding]; other site 509169009478 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 509169009479 active site 509169009480 KMSKS motif; other site 509169009481 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 509169009482 tRNA binding surface [nucleotide binding]; other site 509169009483 anticodon binding site; other site 509169009484 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 509169009486 Pectate lyase; Region: Pec_lyase_C; cl01593 509169009487 Pectate lyase; Region: Pec_lyase_C; cl01593 509169009488 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 509169009489 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 509169009490 Coenzyme A binding pocket [chemical binding]; other site 509169009491 DNA polymerase III psi subunit; Region: DNA_III_psi; cl11436 509169009492 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 509169009493 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 509169009494 prolyl-tRNA synthetase; Provisional; Region: PRK09194 509169009495 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 of...; Region: ProRS_core_prok; cd00779 509169009496 dimer interface [polypeptide binding]; other site 509169009497 motif 1; other site 509169009498 active site 509169009499 motif 2; other site 509169009500 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 509169009501 putative deacylase active site [active] 509169009502 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 attaches...; Region: class_II_aaRS-like_core; cl00268 509169009503 active site 509169009504 motif 3; other site 509169009505 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 509169009506 anticodon binding site; other site 509169009507 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 509169009508 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 509169009509 Uncharacterized conserved protein [Function unknown]; Region: COG2966 509169009510 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 509169009511 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 509169009512 Domain of unknown function DUF140; Region: DUF140; cl00510 509169009513 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 509169009514 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169009515 Walker A/P-loop; other site 509169009516 ATP binding site [chemical binding]; other site 509169009517 Q-loop/lid; other site 509169009518 ABC transporter signature motif; other site 509169009519 Walker B; other site 509169009520 D-loop; other site 509169009521 H-loop/switch region; other site 509169009522 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 509169009523 mce related protein; Region: MCE; cl15431 509169009524 Protein of unknown function (DUF330); Region: DUF330; cl01135 509169009525 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 509169009526 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 509169009527 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169009528 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 509169009529 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 509169009530 Rhamnan synthesis protein F; Region: RgpF; cl01529 509169009531 Rhamnan synthesis protein F; Region: RgpF; cl01529 509169009532 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 509169009533 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 509169009534 phosphomannomutase CpsG; Provisional; Region: PRK15414 509169009535 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 509169009536 active site 509169009537 substrate binding site [chemical binding]; other site 509169009538 metal binding site [ion binding]; metal-binding site 509169009539 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 509169009540 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 509169009541 Substrate binding site; other site 509169009542 Cupin domain; Region: Cupin_2; cl09118 509169009543 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 509169009544 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 509169009545 NADP binding site [chemical binding]; other site 509169009546 active site 509169009547 putative substrate binding site [chemical binding]; other site 509169009548 Cupin domain; Region: Cupin_2; cl09118 509169009549 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 509169009550 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 509169009551 substrate binding site; other site 509169009552 tetramer interface; other site 509169009553 dTDP-glucose 4,6-dehydratase; Region: dTDP_gluc_dehyt; TIGR01181 509169009554 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 509169009555 NAD binding site [chemical binding]; other site 509169009556 substrate binding site [chemical binding]; other site 509169009557 homodimer interface [polypeptide binding]; other site 509169009558 active site 509169009559 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 509169009560 Ligand binding site [chemical binding]; other site 509169009561 Electron transfer flavoprotein domain; Region: ETF; pfam01012 509169009562 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 509169009563 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 509169009564 electron transfer flavoprotein subunit YdiR; Provisional; Region: PRK11916 509169009565 Cupin domain; Region: Cupin_2; cl09118 509169009566 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 509169009567 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 509169009568 inhibitor-cofactor binding pocket; inhibition site 509169009569 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169009570 catalytic residue [active] 509169009571 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 509169009572 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 509169009573 active site 509169009574 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 509169009575 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 509169009576 putative trimer interface [polypeptide binding]; other site 509169009577 putative active site [active] 509169009578 putative substrate binding site [chemical binding]; other site 509169009579 putative CoA binding site [chemical binding]; other site 509169009580 Cupin domain; Region: Cupin_2; cl09118 509169009581 GtrA-like protein; Region: GtrA; cl00971 509169009582 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 509169009583 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 509169009584 NADP-binding site; other site 509169009585 homotetramer interface [polypeptide binding]; other site 509169009586 substrate binding site [chemical binding]; other site 509169009587 homodimer interface [polypeptide binding]; other site 509169009588 active site 509169009589 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 509169009590 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 509169009591 NADP-binding site; other site 509169009592 homotetramer interface [polypeptide binding]; other site 509169009593 substrate binding site [chemical binding]; other site 509169009594 homodimer interface [polypeptide binding]; other site 509169009595 active site 509169009596 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 509169009597 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 509169009598 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 509169009599 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 509169009600 S-adenosylmethionine binding site [chemical binding]; other site 509169009601 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 509169009602 active site 509169009603 ATP binding site [chemical binding]; other site 509169009604 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 509169009605 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 509169009606 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 509169009607 Walker A/P-loop; other site 509169009608 ATP binding site [chemical binding]; other site 509169009609 Q-loop/lid; other site 509169009610 ABC transporter signature motif; other site 509169009611 Walker B; other site 509169009612 D-loop; other site 509169009613 H-loop/switch region; other site 509169009614 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 509169009615 putative carbohydrate binding site [chemical binding]; other site 509169009616 ABC-2 type transporter; Region: ABC2_membrane; cl11417 509169009617 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 509169009618 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 509169009619 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 509169009620 homodimer interface [polypeptide binding]; other site 509169009621 substrate-cofactor binding pocket; other site 509169009622 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169009623 catalytic residue [active] 509169009624 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 509169009625 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 509169009626 dimer interface [polypeptide binding]; other site 509169009627 pyridoxal 5'-phosphate binding site [chemical binding]; other site 509169009628 catalytic residue [active] 509169009629 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 509169009630 Protein of unknown function (DUF465); Region: DUF465; cl01070 509169009631 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 509169009632 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169009633 ATP binding site [chemical binding]; other site 509169009634 Walker B motif; other site 509169009635 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 509169009636 maleylacetoacetate isomerase; Region: maiA; TIGR01262 509169009637 C-terminal domain interface [polypeptide binding]; other site 509169009638 GSH binding site (G-site) [chemical binding]; other site 509169009639 putative dimer interface [polypeptide binding]; other site 509169009640 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 509169009641 N-terminal domain interface [polypeptide binding]; other site 509169009642 dimer interface [polypeptide binding]; other site 509169009643 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 509169009644 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 509169009645 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 509169009646 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 509169009647 ATP binding site [chemical binding]; other site 509169009648 Mg++ binding site [ion binding]; other site 509169009649 motif III; other site 509169009650 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 509169009651 nucleotide binding region [chemical binding]; other site 509169009652 ATP-binding site [chemical binding]; other site 509169009653 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 509169009654 active site 509169009655 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169009656 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169009657 GAF domain; Region: GAF; cl00853 509169009658 TfoX N-terminal domain; Region: TfoX_N; cl01167 509169009659 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 509169009660 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 509169009661 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 509169009662 motif II; other site 509169009663 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 509169009664 active site 509169009665 DNA polymerase IV; Validated; Region: PRK02406 509169009666 DNA binding site [nucleotide binding] 509169009667 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 509169009668 dimer interface [polypeptide binding]; other site 509169009669 active site 1 [active] 509169009670 active site 2 [active] 509169009671 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 509169009672 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 509169009673 dimer interface [polypeptide binding]; other site 509169009674 active site 509169009675 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 509169009676 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 509169009677 active site 509169009678 Zn binding site [ion binding]; other site 509169009679 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 509169009680 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 509169009681 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 509169009682 catalytic residue [active] 509169009683 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 509169009684 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 509169009685 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 509169009686 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 509169009687 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 509169009688 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 509169009689 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 509169009690 dimer interface [polypeptide binding]; other site 509169009691 active site 509169009692 metal binding site [ion binding]; metal-binding site 509169009693 glutathione binding site [chemical binding]; other site 509169009694 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 509169009695 N-acetyl-D-glucosamine binding site [chemical binding]; other site 509169009696 catalytic residue [active] 509169009697 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 509169009698 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 509169009699 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 509169009700 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 509169009701 glutaminase active site [active] 509169009702 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 509169009703 dimer interface [polypeptide binding]; other site 509169009704 active site 509169009705 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 509169009706 dimer interface [polypeptide binding]; other site 509169009707 active site 509169009708 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 509169009709 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 509169009710 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 509169009711 Walker A/P-loop; other site 509169009712 ATP binding site [chemical binding]; other site 509169009713 Q-loop/lid; other site 509169009714 ABC transporter signature motif; other site 509169009715 Walker B; other site 509169009716 D-loop; other site 509169009717 H-loop/switch region; other site 509169009718 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 509169009719 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 509169009720 FtsX-like permease family; Region: FtsX; pfam02687 509169009721 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 509169009722 FtsX-like permease family; Region: FtsX; pfam02687 509169009723 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 509169009724 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 509169009725 active site 509169009726 phosphorylation site [posttranslational modification] 509169009727 intermolecular recognition site; other site 509169009728 dimerization interface [polypeptide binding]; other site 509169009729 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 509169009730 Walker A motif; other site 509169009731 ATP binding site [chemical binding]; other site 509169009732 Walker B motif; other site 509169009733 arginine finger; other site 509169009734 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 509169009735 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 509169009736 ATP binding site [chemical binding]; other site 509169009737 Mg2+ binding site [ion binding]; other site 509169009738 G-X-G motif; other site 509169009739 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 509169009740 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 509169009741 Substrate binding site; other site 509169009742 Mg++ binding site; other site 509169009743 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 509169009744 active site 509169009745 substrate binding site [chemical binding]; other site 509169009746 CoA binding site [chemical binding]; other site 509169009747 GtrA-like protein; Region: GtrA; cl00971 509169009748 Chorismate mutase type II; Region: CM_2; cl00693 509169009749 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 509169009750 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 509169009751 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 509169009752 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 509169009753 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 509169009754 alpha subunit interaction interface [polypeptide binding]; other site 509169009755 Walker A motif; other site 509169009756 ATP binding site [chemical binding]; other site 509169009757 Walker B motif; other site 509169009758 inhibitor binding site; inhibition site 509169009759 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 509169009760 ATP synthase; Region: ATP-synt; cl00365 509169009761 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 509169009762 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 509169009763 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 509169009764 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 509169009765 beta subunit interaction interface [polypeptide binding]; other site 509169009766 Walker A motif; other site 509169009767 ATP binding site [chemical binding]; other site 509169009768 Walker B motif; other site 509169009769 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 509169009770 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl15360 509169009771 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 509169009772 Plant ATP synthase F0; Region: YMF19; cl07975 509169009773 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 509169009774 ATP synthase subunit C; Region: ATP-synt_C; cl00466 509169009775 ATP synthase A chain; Region: ATP-synt_A; cl00413 509169009776 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 509169009777 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 509169009778 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 509169009779 active site 509169009780 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 509169009781 E3 interaction surface; other site 509169009782 lipoyl attachment site [posttranslational modification]; other site 509169009783 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169009784 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 509169009785 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169009786 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 509169009787 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 509169009788 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 509169009789 E3 interaction surface; other site 509169009790 lipoyl attachment site [posttranslational modification]; other site 509169009791 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 509169009792 E3 interaction surface; other site 509169009793 lipoyl attachment site [posttranslational modification]; other site 509169009794 e3 binding domain; Region: E3_binding; pfam02817 509169009795 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 509169009796 Protein of unknown function (DUF2884); Region: DUF2884; cl08135 509169009797 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 509169009798 putative active site [active] 509169009799 Surface antigen; Region: Surface_Ag_2; cl01155 509169009800 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 509169009801 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 509169009802 dimer interface [polypeptide binding]; other site 509169009803 conserved gate region; other site 509169009804 ABC-ATPase subunit interface; other site 509169009805 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 509169009806 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. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 509169009807 Walker A/P-loop; other site 509169009808 ATP binding site [chemical binding]; other site 509169009809 Q-loop/lid; other site 509169009810 ABC transporter signature motif; other site 509169009811 Walker B; other site 509169009812 D-loop; other site 509169009813 H-loop/switch region; other site 509169009814 NIL domain; Region: NIL; cl09633 509169009815 Protein of unknown function (DUF520); Region: DUF520; cl00723 509169009816 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 509169009817 PHP domain; Region: PHP; pfam02811 509169009818 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 509169009819 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169009820 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 509169009821 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 509169009822 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169009823 NAD(P) binding site [chemical binding]; other site 509169009824 active site 509169009825 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 509169009826 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 509169009827 motif II; other site 509169009828 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 509169009829 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 509169009830 active site 509169009831 uracil binding [chemical binding]; other site 509169009832 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 509169009833 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 509169009834 S-adenosylmethionine binding site [chemical binding]; other site 509169009835 Membrane bound L-sorbosone dehydrogenase; Region: SNDH; pfam12303 509169009836 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 509169009837 Protein of unknown function (DUF3247); Region: DUF3247; pfam11607 509169009838 PAS domain S-box; Region: sensory_box; TIGR00229 509169009839 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 509169009840 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 509169009841 putative active site [active] 509169009842 heme pocket [chemical binding]; other site 509169009843 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169009844 dimer interface [polypeptide binding]; other site 509169009845 phosphorylation site [posttranslational modification] 509169009846 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 509169009847 ATP binding site [chemical binding]; other site 509169009848 Mg2+ binding site [ion binding]; other site 509169009849 G-X-G motif; other site 509169009850 Response regulator receiver domain; Region: Response_reg; pfam00072 509169009851 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 509169009852 active site 509169009853 phosphorylation site [posttranslational modification] 509169009854 intermolecular recognition site; other site 509169009855 dimerization interface [polypeptide binding]; other site 509169009856 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 509169009857 alanine racemase; Reviewed; Region: alr; PRK00053 509169009858 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 509169009859 active site 509169009860 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 509169009861 substrate binding site [chemical binding]; other site 509169009862 catalytic residues [active] 509169009863 dimer interface [polypeptide binding]; other site 509169009864 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 509169009865 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169009866 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 509169009867 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169009868 SelR domain; Region: SelR; cl00369 509169009869 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 509169009870 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 509169009871 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 509169009872 flagellar motor protein MotB; Validated; Region: motB; PRK09041 509169009873 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 509169009874 ligand binding site [chemical binding]; other site 509169009875 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 509169009876 ABC-2 type transporter; Region: ABC2_membrane; cl11417 509169009877 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 509169009878 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 509169009879 Walker A/P-loop; other site 509169009880 ATP binding site [chemical binding]; other site 509169009881 Q-loop/lid; other site 509169009882 ABC transporter signature motif; other site 509169009883 Walker B; other site 509169009884 D-loop; other site 509169009885 H-loop/switch region; other site 509169009886 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 509169009887 YCII-related domain; Region: YCII; cl00999 509169009888 Fasciclin domain; Region: Fasciclin; cl02663 509169009889 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 509169009890 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 509169009891 Fe-S cluster binding site [ion binding]; other site 509169009892 active site 509169009893 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 509169009894 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 509169009895 FeS/SAM binding site; other site 509169009896 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 509169009897 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 509169009898 putative active site [active] 509169009899 metal binding site [ion binding]; metal-binding site 509169009900 LysR family transcriptional regulator; Provisional; Region: PRK14997 509169009901 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169009902 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 509169009903 putative effector binding pocket; other site 509169009904 dimerization interface [polypeptide binding]; other site 509169009905 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 509169009906 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 509169009907 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 509169009908 active site 509169009909 catalytic tetrad [active] 509169009910 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 509169009911 active site 509169009912 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 509169009913 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 509169009914 active site 509169009915 Zn binding site [ion binding]; other site 509169009916 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 509169009917 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 509169009918 Amino acid permease; Region: AA_permease; cl00524 509169009919 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 509169009920 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 509169009921 active site 509169009922 phosphorylation site [posttranslational modification] 509169009923 intermolecular recognition site; other site 509169009924 dimerization interface [polypeptide binding]; other site 509169009925 LytTr DNA-binding domain; Region: LytTR; cl04498 509169009926 Histidine kinase; Region: His_kinase; pfam06580 509169009927 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 509169009928 ATP binding site [chemical binding]; other site 509169009929 Mg2+ binding site [ion binding]; other site 509169009930 G-X-G motif; other site 509169009931 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 509169009932 FAD dependent oxidoreductase; Region: DAO; pfam01266 509169009933 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 509169009934 catalytic triad [active] 509169009935 conserved cis-peptide bond; other site 509169009936 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 509169009937 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 509169009938 dimerization interface [polypeptide binding]; other site 509169009939 metal binding site [ion binding]; metal-binding site 509169009940 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 509169009941 dimanganese center [ion binding]; other site 509169009942 CheB methylesterase; Region: CheB_methylest; pfam01339 509169009943 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 509169009944 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 509169009945 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 509169009946 TPR/MLP1/MLP2-like protein; Region: TPR_MLP1_2; pfam07926 509169009947 Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; Region: Cenp-F_leu_zip; pfam10473 509169009948 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 509169009949 putative active site [active] 509169009950 PAS fold; Region: PAS_3; pfam08447 509169009951 heme pocket [chemical binding]; other site 509169009952 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 509169009953 Histidine kinase; Region: HisKA_2; cl06527 509169009954 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 509169009955 active site 509169009956 phosphorylation site [posttranslational modification] 509169009957 intermolecular recognition site; other site 509169009958 dimerization interface [polypeptide binding]; other site 509169009959 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 509169009960 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 509169009961 active site 509169009962 phosphorylation site [posttranslational modification] 509169009963 intermolecular recognition site; other site 509169009964 dimerization interface [polypeptide binding]; other site 509169009965 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 509169009966 Walker A motif; other site 509169009967 ATP binding site [chemical binding]; other site 509169009968 Walker B motif; other site 509169009969 arginine finger; other site 509169009970 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169009971 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 509169009972 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 509169009973 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 509169009974 oxidoreductase; Provisional; Region: PRK06128 509169009975 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169009976 NAD(P) binding site [chemical binding]; other site 509169009977 active site 509169009978 UDP-glucose 4-epimerase; Region: PLN02240 509169009979 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 509169009980 NAD binding site [chemical binding]; other site 509169009981 homodimer interface [polypeptide binding]; other site 509169009982 active site 509169009983 substrate binding site [chemical binding]; other site 509169009984 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: GT1_like_1; cd04950 509169009985 putative homodimer interface [polypeptide binding]; other site 509169009986 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169009987 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 509169009988 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169009989 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 509169009990 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 509169009991 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 509169009992 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169009993 Walker A/P-loop; other site 509169009994 ATP binding site [chemical binding]; other site 509169009995 Q-loop/lid; other site 509169009996 ABC transporter signature motif; other site 509169009997 Walker B; other site 509169009998 D-loop; other site 509169009999 H-loop/switch region; other site 509169010000 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 509169010001 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 509169010002 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 509169010003 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 509169010004 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 509169010005 NAD binding site [chemical binding]; other site 509169010006 catalytic Zn binding site [ion binding]; other site 509169010007 structural Zn binding site [ion binding]; other site 509169010008 Flagellin N-methylase; Region: FliB; cl00497 509169010009 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 509169010010 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 509169010011 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 509169010012 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 509169010013 Domain of unknown function (DUF802); Region: DUF802; pfam05650 509169010014 hypothetical protein; Provisional; Region: PRK09040 509169010015 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 509169010016 ligand binding site [chemical binding]; other site 509169010017 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 509169010018 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 509169010019 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 509169010020 N-terminal plug; other site 509169010021 ligand-binding site [chemical binding]; other site 509169010022 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 509169010023 ABC-2 type transporter; Region: ABC2_membrane; cl11417 509169010024 Domain of unknown function (DUF3526); Region: DUF3526; pfam12040 509169010025 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 509169010026 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 509169010027 Walker A/P-loop; other site 509169010028 ATP binding site [chemical binding]; other site 509169010029 Q-loop/lid; other site 509169010030 ABC transporter signature motif; other site 509169010031 Walker B; other site 509169010032 D-loop; other site 509169010033 H-loop/switch region; other site 509169010034 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 509169010035 putative active site [active] 509169010036 Zn binding site [ion binding]; other site 509169010037 Transcriptional regulator [Transcription]; Region: LysR; COG0583 509169010038 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169010039 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 509169010040 putative effector binding pocket; other site 509169010041 putative dimerization interface [polypeptide binding]; other site 509169010042 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 509169010043 homotrimer interaction site [polypeptide binding]; other site 509169010044 putative active site [active] 509169010045 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 509169010046 NADP binding site [chemical binding]; other site 509169010047 active site 509169010048 steroid binding site; other site 509169010049 Agrobacterium tumefaciens protein Atu4866; Region: Atu4866; pfam11512 509169010050 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 509169010051 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 509169010052 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 509169010053 active site 509169010054 catalytic tetrad [active] 509169010055 Transcriptional regulator [Transcription]; Region: LysR; COG0583 509169010056 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169010057 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 509169010058 dimerization interface [polypeptide binding]; other site 509169010059 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169010060 putative transposase OrfB; Reviewed; Region: PHA02517 509169010061 Integrase core domain; Region: rve; cl01316 509169010062 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 509169010063 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 509169010064 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 509169010065 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 509169010066 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 509169010067 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 509169010068 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 509169010069 DNA binding residues [nucleotide binding] 509169010070 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 509169010071 putative active site [active] 509169010072 dimerization interface [polypeptide binding]; other site 509169010073 putative tRNAtyr binding site [nucleotide binding]; other site 509169010074 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 509169010075 putative acyl-acceptor binding pocket; other site 509169010076 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 509169010077 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 509169010078 Coenzyme A binding pocket [chemical binding]; other site 509169010079 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 509169010080 GTP cyclohydrolase; Provisional; Region: PRK08815 509169010081 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 509169010082 dimerization interface [polypeptide binding]; other site 509169010083 active site 509169010084 Bacterial membrane flanked domain; Region: DUF304; cl01348 509169010085 Predicted membrane protein [Function unknown]; Region: COG3428 509169010086 Bacterial membrane flanked domain; Region: DUF304; cl01348 509169010087 Bacterial membrane flanked domain; Region: DUF304; cl01348 509169010088 Bacterial membrane flanked domain; Region: DUF304; cl01348 509169010089 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 509169010090 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 509169010091 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 509169010092 putative metal binding site; other site 509169010093 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 509169010094 O-Antigen ligase; Region: Wzy_C; cl04850 509169010095 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 509169010096 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl15364 509169010097 16S rRNA methyltransferase B; Provisional; Region: PRK10901 509169010098 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 509169010099 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 509169010100 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 509169010101 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 509169010102 putative active site [active] 509169010103 substrate binding site [chemical binding]; other site 509169010104 putative cosubstrate binding site; other site 509169010105 catalytic site [active] 509169010106 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 509169010107 substrate binding site [chemical binding]; other site 509169010108 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 509169010109 active site 509169010110 catalytic residues [active] 509169010111 metal binding site [ion binding]; metal-binding site 509169010112 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 509169010113 putative peptidoglycan binding site; other site 509169010114 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 509169010115 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 509169010116 Protein of unknown function (DUF494); Region: DUF494; cl01103 509169010117 Pilin (bacterial filament); Region: Pilin; pfam00114 509169010118 RDD family; Region: RDD; cl00746 509169010119 DNA topoisomerase I; Provisional; Region: PRK08780 509169010120 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 509169010121 active site 509169010122 interdomain interaction site; other site 509169010123 putative metal-binding site [ion binding]; other site 509169010124 nucleotide binding site [chemical binding]; other site 509169010125 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 509169010126 domain I; other site 509169010127 DNA binding groove [nucleotide binding] 509169010128 phosphate binding site [ion binding]; other site 509169010129 domain II; other site 509169010130 domain III; other site 509169010131 nucleotide binding site [chemical binding]; other site 509169010132 catalytic site [active] 509169010133 domain IV; other site 509169010134 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 509169010135 PAS domain S-box; Region: sensory_box; TIGR00229 509169010136 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 509169010137 putative active site [active] 509169010138 heme pocket [chemical binding]; other site 509169010139 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 509169010140 PAS fold; Region: PAS_4; pfam08448 509169010141 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169010142 metal binding site [ion binding]; metal-binding site 509169010143 active site 509169010144 I-site; other site 509169010145 tropinone reductase; Provisional; Region: PRK09242 509169010146 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169010147 NAD(P) binding site [chemical binding]; other site 509169010148 active site 509169010149 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 509169010150 tandem repeat interface [polypeptide binding]; other site 509169010151 oligomer interface [polypeptide binding]; other site 509169010152 active site residues [active] 509169010153 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 509169010154 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 509169010155 tandem repeat interface [polypeptide binding]; other site 509169010156 oligomer interface [polypeptide binding]; other site 509169010157 active site residues [active] 509169010158 multidrug efflux protein; Reviewed; Region: PRK01766 509169010159 MatE; Region: MatE; cl10513 509169010160 MatE; Region: MatE; cl10513 509169010161 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 509169010162 primosome assembly protein PriA; Validated; Region: PRK05580 509169010163 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 509169010164 ATP binding site [chemical binding]; other site 509169010165 putative Mg++ binding site [ion binding]; other site 509169010166 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169010167 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 509169010168 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 509169010169 putative C-terminal domain interface [polypeptide binding]; other site 509169010170 putative GSH binding site (G-site) [chemical binding]; other site 509169010171 putative dimer interface [polypeptide binding]; other site 509169010172 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 509169010173 putative N-terminal domain interface [polypeptide binding]; other site 509169010174 putative dimer interface [polypeptide binding]; other site 509169010175 putative substrate binding pocket (H-site) [chemical binding]; other site 509169010176 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 509169010177 putative metal binding site [ion binding]; other site 509169010178 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 509169010179 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 509169010180 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169010181 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169010182 Predicted membrane protein [Function unknown]; Region: COG2860 509169010183 UPF0126 domain; Region: UPF0126; pfam03458 509169010184 UPF0126 domain; Region: UPF0126; pfam03458 509169010185 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 509169010186 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 509169010187 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 509169010188 DNA binding residues [nucleotide binding] 509169010189 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 509169010190 ligand binding site [chemical binding]; other site 509169010191 active site 509169010192 UGI interface [polypeptide binding]; other site 509169010193 catalytic site [active] 509169010194 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 509169010195 active site 509169010196 phosphorylation site [posttranslational modification] 509169010197 intermolecular recognition site; other site 509169010198 dimerization interface [polypeptide binding]; other site 509169010199 Response regulator receiver domain; Region: Response_reg; pfam00072 509169010200 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 509169010201 active site 509169010202 phosphorylation site [posttranslational modification] 509169010203 intermolecular recognition site; other site 509169010204 dimerization interface [polypeptide binding]; other site 509169010205 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 509169010206 FtsX-like permease family; Region: FtsX; pfam02687 509169010207 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 509169010208 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169010209 Walker A/P-loop; other site 509169010210 ATP binding site [chemical binding]; other site 509169010211 Q-loop/lid; other site 509169010212 ABC transporter signature motif; other site 509169010213 Walker B; other site 509169010214 D-loop; other site 509169010215 H-loop/switch region; other site 509169010216 helicase 45; Provisional; Region: PTZ00424 509169010217 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 509169010218 ATP binding site [chemical binding]; other site 509169010219 Mg++ binding site [ion binding]; other site 509169010220 motif III; other site 509169010221 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 509169010222 nucleotide binding region [chemical binding]; other site 509169010223 ATP-binding site [chemical binding]; other site 509169010224 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 509169010225 catalytic residues [active] 509169010226 transcription termination factor Rho; Provisional; Region: rho; PRK09376 509169010227 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 509169010228 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 509169010229 RNA binding site [nucleotide binding]; other site 509169010230 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 509169010231 multimer interface [polypeptide binding]; other site 509169010232 Walker A motif; other site 509169010233 ATP binding site [chemical binding]; other site 509169010234 Walker B motif; other site 509169010235 Gram-negative bacterial tonB protein; Region: TonB; cl10048 509169010236 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 509169010237 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 509169010238 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 509169010239 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169010240 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 509169010241 dimerization interface [polypeptide binding]; other site 509169010242 substrate binding pocket [chemical binding]; other site 509169010243 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 509169010244 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 509169010245 putative peptidoglycan binding site; other site 509169010246 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 509169010247 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 509169010248 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 509169010249 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 509169010250 metal binding site [ion binding]; metal-binding site 509169010251 putative dimer interface [polypeptide binding]; other site 509169010252 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 509169010253 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 509169010254 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 509169010255 Protein export membrane protein; Region: SecD_SecF; cl14618 509169010256 YCII-related domain; Region: YCII; cl00999 509169010257 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 509169010258 dimer interface [polypeptide binding]; other site 509169010259 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 509169010260 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 509169010261 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 509169010262 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl15358 509169010263 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 509169010264 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 509169010265 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 509169010266 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 509169010267 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 509169010268 Ca2+ binding site [ion binding]; other site 509169010269 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 509169010270 Ca2+ binding site [ion binding]; other site 509169010271 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 509169010272 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 509169010273 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 509169010274 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 509169010275 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 509169010276 amidase catalytic site [active] 509169010277 Zn binding residues [ion binding]; other site 509169010278 substrate binding site [chemical binding]; other site 509169010279 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 509169010280 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 509169010281 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 509169010282 NlpC/P60 family; Region: NLPC_P60; cl11438 509169010283 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 509169010284 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 509169010285 active site 509169010286 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 509169010287 Amino acid permease; Region: AA_permease; cl00524 509169010288 Transposase domain (DUF772); Region: DUF772; cl12084 509169010289 yiaA/B two helix domain; Region: YiaAB; cl01759 509169010290 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 509169010291 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 509169010292 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 509169010293 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 509169010294 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 509169010295 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 509169010296 homooctamer interface [polypeptide binding]; other site 509169010297 active site 509169010298 UGMP family protein; Validated; Region: PRK09604 509169010299 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 509169010300 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 509169010301 GatB domain; Region: GatB_Yqey; cl11497 509169010302 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 509169010303 DNA primase; Validated; Region: dnaG; PRK05667 509169010304 CHC2 zinc finger; Region: zf-CHC2; cl15369 509169010305 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 509169010306 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 509169010307 active site 509169010308 metal binding site [ion binding]; metal-binding site 509169010309 interdomain interaction site; other site 509169010310 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 509169010311 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 509169010312 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 509169010313 Membrane transport protein; Region: Mem_trans; cl09117 509169010314 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 509169010315 catalytic residues [active] 509169010316 UbiA prenyltransferase family; Region: UbiA; cl00337 509169010317 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 509169010318 cytochrome c oxidase assembly protein; Provisional; Region: PTZ00127 509169010319 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 509169010320 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 509169010321 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 509169010322 Subunit III/VIIa interface [polypeptide binding]; other site 509169010323 Phospholipid binding site [chemical binding]; other site 509169010324 Subunit I/III interface [polypeptide binding]; other site 509169010325 Subunit III/VIb interface [polypeptide binding]; other site 509169010326 Subunit III/VIa interface; other site 509169010327 Subunit III/Vb interface [polypeptide binding]; other site 509169010328 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 509169010329 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 509169010330 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 509169010331 Subunit I/III interface [polypeptide binding]; other site 509169010332 D-pathway; other site 509169010333 Subunit I/VIIc interface [polypeptide binding]; other site 509169010334 Subunit I/IV interface [polypeptide binding]; other site 509169010335 Subunit I/II interface [polypeptide binding]; other site 509169010336 Low-spin heme (heme a) binding site [chemical binding]; other site 509169010337 Subunit I/VIIa interface [polypeptide binding]; other site 509169010338 Subunit I/VIa interface [polypeptide binding]; other site 509169010339 Dimer interface; other site 509169010340 Putative water exit pathway; other site 509169010341 Binuclear center (heme a3/CuB) [ion binding]; other site 509169010342 K-pathway; other site 509169010343 Subunit I/Vb interface [polypeptide binding]; other site 509169010344 Putative proton exit pathway; other site 509169010345 Subunit I/VIb interface; other site 509169010346 Subunit I/VIc interface [polypeptide binding]; other site 509169010347 Electron transfer pathway; other site 509169010348 Subunit I/VIIIb interface [polypeptide binding]; other site 509169010349 Subunit I/VIIb interface [polypeptide binding]; other site 509169010350 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 509169010351 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 509169010352 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 509169010353 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 509169010354 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 509169010355 Proline dehydrogenase; Region: Pro_dh; cl03282 509169010356 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 509169010357 Glutamate binding site [chemical binding]; other site 509169010358 NAD binding site [chemical binding]; other site 509169010359 catalytic residues [active] 509169010360 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169010361 putative transposase OrfB; Reviewed; Region: PHA02517 509169010362 Integrase core domain; Region: rve; cl01316 509169010363 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 509169010364 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 509169010365 active site 509169010366 HIGH motif; other site 509169010367 dimer interface [polypeptide binding]; other site 509169010368 KMSKS motif; other site 509169010369 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 509169010370 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 509169010371 Peptidase family M23; Region: Peptidase_M23; pfam01551 509169010372 Uncharacterised protein family (UPF0075); Region: UPF0075; cl04217 509169010373 AmpG-related permease; Region: 2A0125; TIGR00901 509169010374 muropeptide transporter; Validated; Region: ampG; PRK11010 509169010375 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 509169010376 putative active site [active] 509169010377 putative DNA binding site [nucleotide binding]; other site 509169010378 putative phosphate binding site [ion binding]; other site 509169010379 putative catalytic site [active] 509169010380 metal binding site A [ion binding]; metal-binding site 509169010381 putative AP binding site [nucleotide binding]; other site 509169010382 putative metal binding site B [ion binding]; other site 509169010383 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 509169010384 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 509169010385 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 509169010386 P-loop; other site 509169010387 Magnesium ion binding site [ion binding]; other site 509169010388 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 509169010389 Magnesium ion binding site [ion binding]; other site 509169010390 ParB-like partition proteins; Region: parB_part; TIGR00180 509169010391 ParB-like nuclease domain; Region: ParBc; cl02129 509169010392 TfoX N-terminal domain; Region: TfoX_N; cl01167 509169010393 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 509169010394 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 509169010395 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 509169010396 putative NAD(P) binding site [chemical binding]; other site 509169010397 active site 509169010398 putative substrate binding site [chemical binding]; other site 509169010399 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 509169010400 Ligand binding site; other site 509169010401 Putative Catalytic site; other site 509169010402 DXD motif; other site 509169010403 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 509169010404 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 509169010405 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 509169010406 active site 509169010407 substrate binding site [chemical binding]; other site 509169010408 metal binding site [ion binding]; metal-binding site 509169010409 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 509169010410 trimer interface [polypeptide binding]; other site 509169010411 active site 509169010412 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 509169010413 Flavoprotein; Region: Flavoprotein; cl08021 509169010414 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 509169010415 hypothetical protein; Reviewed; Region: PRK00024 509169010416 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 509169010417 MPN+ (JAMM) motif; other site 509169010418 Zinc-binding site [ion binding]; other site 509169010419 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 509169010420 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 509169010421 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 509169010422 active site 509169010423 HIGH motif; other site 509169010424 KMSK motif region; other site 509169010425 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 509169010426 tRNA binding surface [nucleotide binding]; other site 509169010427 anticodon binding site; other site 509169010428 Sporulation related domain; Region: SPOR; cl10051 509169010429 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 509169010430 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 509169010431 putative NAD(P) binding site [chemical binding]; other site 509169010432 homotetramer interface [polypeptide binding]; other site 509169010433 homodimer interface [polypeptide binding]; other site 509169010434 active site 509169010435 OpgC protein; Region: OpgC_C; cl00792 509169010436 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 509169010437 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 509169010438 active site 509169010439 TDP-binding site; other site 509169010440 acceptor substrate-binding pocket; other site 509169010441 homodimer interface [polypeptide binding]; other site 509169010442 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 509169010443 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 509169010444 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 509169010445 Phosphopantetheine attachment site; Region: PP-binding; cl09936 509169010446 Transposase domain (DUF772); Region: DUF772; cl12084 509169010447 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 509169010448 arginine decarboxylase; Provisional; Region: PRK05354 509169010449 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 509169010450 dimer interface [polypeptide binding]; other site 509169010451 active site 509169010452 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 509169010453 catalytic residues [active] 509169010454 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 509169010455 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 509169010456 spermidine synthase; Provisional; Region: PRK00811 509169010457 Kae1-associated kinase Bud32; Region: arch_bud32; TIGR03724 509169010458 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 509169010459 active site 509169010460 ATP binding site [chemical binding]; other site 509169010461 Nitrogen regulatory protein P-II; Region: P-II; cl00412 509169010462 Membrane fusogenic activity; Region: BMFP; cl01115 509169010463 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 509169010464 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169010465 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 509169010466 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 509169010467 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 509169010468 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 509169010469 Fatty acid desaturase; Region: FA_desaturase; pfam00487 509169010470 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 509169010471 putative di-iron ligands [ion binding]; other site 509169010472 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_2; cd06216 509169010473 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 509169010474 FAD binding pocket [chemical binding]; other site 509169010475 FAD binding motif [chemical binding]; other site 509169010476 phosphate binding motif [ion binding]; other site 509169010477 beta-alpha-beta structure motif; other site 509169010478 NAD binding pocket [chemical binding]; other site 509169010479 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 509169010480 catalytic loop [active] 509169010481 iron binding site [ion binding]; other site 509169010482 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 509169010483 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169010484 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 509169010485 Fe-S cluster binding site [ion binding]; other site 509169010486 active site 509169010487 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 509169010488 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 protein; Region: Hint; cl12032 509169010489 hypothetical protein; Reviewed; Region: PRK09588 509169010490 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 509169010491 Protein of unknown function (DUF3182); Region: DUF3182; pfam11379 509169010492 Predicted outer membrane protein [Function unknown]; Region: COG3652 509169010493 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 509169010494 TIGR01777 family protein; Region: yfcH 509169010495 putative NAD(P) binding site [chemical binding]; other site 509169010496 putative active site [active] 509169010497 mercuric reductase; Validated; Region: PRK06370 509169010498 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169010499 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169010500 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 509169010501 Predicted membrane protein [Function unknown]; Region: COG3918 509169010502 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 509169010503 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 509169010504 active site 509169010505 phosphorylation site [posttranslational modification] 509169010506 intermolecular recognition site; other site 509169010507 dimerization interface [polypeptide binding]; other site 509169010508 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 509169010509 DNA binding site [nucleotide binding] 509169010510 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 509169010511 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169010512 dimer interface [polypeptide binding]; other site 509169010513 phosphorylation site [posttranslational modification] 509169010514 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 509169010515 ATP binding site [chemical binding]; other site 509169010516 Mg2+ binding site [ion binding]; other site 509169010517 G-X-G motif; other site 509169010520 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 509169010521 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 triad...; Region: Tryp_SPc; cl00149 509169010522 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 509169010523 protein binding site [polypeptide binding]; other site 509169010524 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 509169010525 protein binding site [polypeptide binding]; other site 509169010526 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 509169010527 Domain of unknown function DUF20; Region: UPF0118; cl00465 509169010528 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 509169010529 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 509169010530 motif II; other site 509169010531 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 509169010532 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 509169010533 interface (dimer of trimers) [polypeptide binding]; other site 509169010534 Substrate-binding/catalytic site; other site 509169010535 Zn-binding sites [ion binding]; other site 509169010536 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 509169010537 putative heme binding pocket [chemical binding]; other site 509169010538 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 509169010539 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 509169010540 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 509169010541 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 509169010542 active site 509169010543 phosphorylation site [posttranslational modification] 509169010544 intermolecular recognition site; other site 509169010545 dimerization interface [polypeptide binding]; other site 509169010546 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 509169010547 DNA binding residues [nucleotide binding] 509169010548 dimerization interface [polypeptide binding]; other site 509169010549 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 509169010550 Histidine kinase; Region: HisKA_3; pfam07730 509169010551 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 509169010552 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 509169010553 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 509169010554 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 509169010555 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 509169010556 Walker A/P-loop; other site 509169010557 ATP binding site [chemical binding]; other site 509169010558 Q-loop/lid; other site 509169010559 ABC transporter signature motif; other site 509169010560 Walker B; other site 509169010561 D-loop; other site 509169010562 H-loop/switch region; other site 509169010563 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 509169010564 FtsX-like permease family; Region: FtsX; pfam02687 509169010565 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 509169010566 FtsX-like permease family; Region: FtsX; pfam02687 509169010567 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 509169010568 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 509169010569 Predicted permeases [General function prediction only]; Region: RarD; COG2962 509169010570 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 509169010571 EamA-like transporter family; Region: EamA; cl01037 509169010572 EamA-like transporter family; Region: EamA; cl01037 509169010573 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 509169010574 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 509169010575 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 509169010576 PA/protease or protease-like domain interface [polypeptide binding]; other site 509169010577 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 509169010578 metal binding site [ion binding]; metal-binding site 509169010579 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 509169010580 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 509169010581 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 509169010582 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 509169010583 active site 509169010584 HIGH motif; other site 509169010585 dimer interface [polypeptide binding]; other site 509169010586 KMSKS motif; other site 509169010587 CsbD-like; Region: CsbD; cl01272 509169010588 Entericidin EcnA/B family; Region: Entericidin; cl02322 509169010589 Entericidin EcnA/B family; Region: Entericidin; cl02322 509169010590 Arginase family; Region: Arginase; cl00306 509169010591 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 509169010592 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; cd00882 509169010593 G1 box; other site 509169010594 GTP/Mg2+ binding site [chemical binding]; other site 509169010595 G2 box; other site 509169010596 Switch I region; other site 509169010597 G3 box; other site 509169010598 Switch II region; other site 509169010599 G4 box; other site 509169010600 G5 box; other site 509169010601 thymidylate kinase; Validated; Region: tmk; PRK00698 509169010602 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 509169010603 TMP-binding site; other site 509169010604 ATP-binding site [chemical binding]; other site 509169010605 Cupin domain; Region: Cupin_2; cl09118 509169010606 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 509169010607 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 509169010608 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 509169010609 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 509169010610 Sporulation related domain; Region: SPOR; cl10051 509169010611 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 509169010612 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 509169010613 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169010614 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 509169010615 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 509169010616 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 509169010617 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 509169010618 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 509169010619 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 509169010620 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 509169010621 ATP binding site [chemical binding]; other site 509169010622 G-X-G motif; other site 509169010623 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 509169010624 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 509169010625 active site 509169010626 phosphorylation site [posttranslational modification] 509169010627 intermolecular recognition site; other site 509169010628 dimerization interface [polypeptide binding]; other site 509169010629 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 509169010630 DNA binding site [nucleotide binding] 509169010631 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 509169010632 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 509169010633 FMN binding site [chemical binding]; other site 509169010634 active site 509169010635 catalytic residues [active] 509169010636 substrate binding site [chemical binding]; other site 509169010637 NIPSNAP; Region: NIPSNAP; pfam07978 509169010638 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 509169010639 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 509169010640 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 509169010641 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 509169010642 tetramer interface [polypeptide binding]; other site 509169010643 heme binding pocket [chemical binding]; other site 509169010644 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 509169010645 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169010646 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 509169010647 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 509169010648 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 509169010649 shikimate binding site; other site 509169010650 NAD(P) binding site [chemical binding]; other site 509169010651 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 509169010652 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 509169010653 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 509169010654 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 509169010655 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 509169010656 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 509169010657 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_like1; cd06200 509169010658 FAD binding pocket [chemical binding]; other site 509169010659 FAD binding motif [chemical binding]; other site 509169010660 catalytic residues [active] 509169010661 NAD binding pocket [chemical binding]; other site 509169010662 phosphate binding motif [ion binding]; other site 509169010663 beta-alpha-beta structure motif; other site 509169010664 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 509169010665 dimer interface [polypeptide binding]; other site 509169010666 allosteric magnesium binding site [ion binding]; other site 509169010667 active site 509169010668 aspartate-rich active site metal binding site; other site 509169010669 Schiff base residues; other site 509169010670 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 509169010671 Cytochrome oxidase complex assembly protein 1; Region: Coa1; cl14904 509169010672 translocation protein TolB; Provisional; Region: tolB; PRK04922 509169010673 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 509169010674 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 509169010675 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 509169010676 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 509169010677 C-terminal domain interface [polypeptide binding]; other site 509169010678 GSH binding site (G-site) [chemical binding]; other site 509169010679 dimer interface [polypeptide binding]; other site 509169010680 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 509169010681 N-terminal domain interface [polypeptide binding]; other site 509169010682 dimer interface [polypeptide binding]; other site 509169010683 substrate binding pocket (H-site) [chemical binding]; other site 509169010684 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 509169010685 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169010686 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169010687 SapC; Region: SapC; pfam07277 509169010688 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169010689 Gram-negative bacterial tonB protein; Region: TonB; cl10048 509169010690 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 509169010691 ABC-2 type transporter; Region: ABC2_membrane; cl11417 509169010692 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 509169010693 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169010694 Walker A/P-loop; other site 509169010695 ATP binding site [chemical binding]; other site 509169010696 Q-loop/lid; other site 509169010697 ABC transporter signature motif; other site 509169010698 Walker B; other site 509169010699 D-loop; other site 509169010700 H-loop/switch region; other site 509169010701 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 509169010702 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 509169010703 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 509169010704 non-specific DNA binding site [nucleotide binding]; other site 509169010705 salt bridge; other site 509169010706 sequence-specific DNA binding site [nucleotide binding]; other site 509169010707 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 509169010708 putative metal binding site [ion binding]; other site 509169010709 putative homotetramer interface [polypeptide binding]; other site 509169010710 putative homodimer interface [polypeptide binding]; other site 509169010711 putative homodimer-homodimer interface [polypeptide binding]; other site 509169010712 putative allosteric switch controlling residues; other site 509169010713 Cation efflux family; Region: Cation_efflux; cl00316 509169010714 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 509169010715 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 509169010716 FAD binding pocket [chemical binding]; other site 509169010717 FAD binding motif [chemical binding]; other site 509169010718 phosphate binding motif [ion binding]; other site 509169010719 beta-alpha-beta structure motif; other site 509169010720 NAD binding pocket [chemical binding]; other site 509169010721 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 509169010722 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169010723 Walker A/P-loop; other site 509169010724 ATP binding site [chemical binding]; other site 509169010725 Q-loop/lid; other site 509169010726 ABC transporter signature motif; other site 509169010727 Walker B; other site 509169010728 D-loop; other site 509169010729 H-loop/switch region; other site 509169010730 ABC-2 type transporter; Region: ABC2_membrane; cl11417 509169010731 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 509169010732 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 509169010733 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169010734 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 509169010735 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 509169010736 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 509169010737 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 509169010738 catalytic residues [active] 509169010739 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 509169010740 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 509169010741 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 509169010742 dimer interface [polypeptide binding]; other site 509169010743 putative radical transfer pathway; other site 509169010744 diiron center [ion binding]; other site 509169010745 tyrosyl radical; other site 509169010746 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09209 509169010747 Class I ribonucleotide reductase; Region: RNR_I; cd01679 509169010748 active site 509169010749 dimer interface [polypeptide binding]; other site 509169010750 catalytic residues [active] 509169010751 effector binding site; other site 509169010752 R2 peptide binding site; other site 509169010753 Integral membrane protein TerC family; Region: TerC; cl10468 509169010754 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 509169010755 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169010756 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 509169010757 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 509169010758 MgtE intracellular N domain; Region: MgtE_N; cl15244 509169010759 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 509169010760 Divalent cation transporter; Region: MgtE; cl00786 509169010761 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 509169010762 active site 509169010763 zinc binding site [ion binding]; other site 509169010764 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 509169010765 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 509169010766 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169010767 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 509169010768 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 509169010769 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 509169010770 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 509169010771 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 509169010772 Low molecular weight phosphatase family; Region: LMWPc; cl00105 509169010773 active site 509169010774 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 509169010775 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 509169010776 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 509169010777 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 509169010778 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 509169010779 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 509169010780 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 509169010781 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 509169010782 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 509169010783 YcgL domain; Region: YcgL; cl01189 509169010784 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 509169010785 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 509169010786 dimer interface [polypeptide binding]; other site 509169010787 active site 509169010788 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 509169010789 Ligand binding site; other site 509169010790 Putative Catalytic site; other site 509169010791 DXD motif; other site 509169010792 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 509169010793 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169010794 Predicted ATPase [General function prediction only]; Region: COG4637 509169010795 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169010796 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169010797 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169010798 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 509169010799 NAD(P) binding site [chemical binding]; other site 509169010800 active site 509169010801 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 509169010802 putative active site 1 [active] 509169010803 Predicted exporter [General function prediction only]; Region: COG4258 509169010804 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 509169010805 putative acyl-acceptor binding pocket; other site 509169010806 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 509169010807 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 509169010808 putative acyl-acceptor binding pocket; other site 509169010809 Phosphopantetheine attachment site; Region: PP-binding; cl09936 509169010810 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 509169010811 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169010812 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_5; cd06153 509169010813 homotrimer interaction site [polypeptide binding]; other site 509169010814 putative active site [active] 509169010815 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 509169010816 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 509169010817 translocation protein TolB; Provisional; Region: tolB; PRK04922 509169010818 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 509169010819 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 509169010820 cellulose synthase regulator protein; Provisional; Region: PRK11114 509169010821 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 509169010822 DNA polymerase I; Provisional; Region: PRK05755 509169010823 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 509169010824 active site 509169010825 metal binding site 1 [ion binding]; metal-binding site 509169010826 putative 5' ssDNA interaction site; other site 509169010827 metal binding site 3; metal-binding site 509169010828 metal binding site 2 [ion binding]; metal-binding site 509169010829 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 509169010830 putative DNA binding site [nucleotide binding]; other site 509169010831 putative metal binding site [ion binding]; other site 509169010832 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 509169010833 active site 509169010834 catalytic site [active] 509169010835 substrate binding site [chemical binding]; other site 509169010836 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 509169010837 active site 509169010838 DNA binding site [nucleotide binding] 509169010839 catalytic site [active] 509169010840 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 509169010841 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 509169010842 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 509169010843 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 509169010844 Ligand Binding Site [chemical binding]; other site 509169010845 maltose O-acetyltransferase; Provisional; Region: PRK10092 509169010846 Maltose acetyltransferase; Region: Mac; pfam12464 509169010847 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 509169010848 trimer interface [polypeptide binding]; other site 509169010849 active site 509169010850 substrate binding site [chemical binding]; other site 509169010851 CoA binding site [chemical binding]; other site 509169010852 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 509169010853 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169010854 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 509169010855 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 509169010856 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 509169010857 putative active site [active] 509169010858 catalytic site [active] 509169010859 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 509169010860 putative active site [active] 509169010861 catalytic site [active] 509169010862 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169010863 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 509169010864 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169010865 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 509169010866 dimerization interface [polypeptide binding]; other site 509169010867 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 509169010868 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 509169010869 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169010870 putative transposase OrfB; Reviewed; Region: PHA02517 509169010871 Integrase core domain; Region: rve; cl01316 509169010872 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 509169010873 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 509169010874 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 509169010875 Cation efflux family; Region: Cation_efflux; cl00316 509169010876 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 509169010877 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 509169010878 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 509169010879 carboxyltransferase (CT) interaction site; other site 509169010880 biotinylation site [posttranslational modification]; other site 509169010881 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 509169010882 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 509169010883 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 509169010884 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 509169010885 PhoD-like phosphatase; Region: PhoD; pfam09423 509169010886 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 509169010887 putative active site [active] 509169010888 putative metal binding site [ion binding]; other site 509169010889 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 509169010890 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 509169010891 Integrase core domain; Region: rve; cl01316 509169010893 Protein of unknown function (DUF416); Region: DUF416; cl01166 509169010894 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 509169010895 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 509169010896 RHS Repeat; Region: RHS_repeat; cl11982 509169010897 RHS Repeat; Region: RHS_repeat; cl11982 509169010898 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 509169010899 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 509169010900 putative active site [active] 509169010901 putative metal binding site [ion binding]; other site 509169010902 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 509169010903 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 509169010904 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 509169010905 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 509169010906 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 509169010907 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 509169010908 putative phosphate binding site [ion binding]; other site 509169010909 putative catalytic site [active] 509169010910 active site 509169010911 metal binding site A [ion binding]; metal-binding site 509169010912 DNA binding site [nucleotide binding] 509169010913 putative AP binding site [nucleotide binding]; other site 509169010914 putative metal binding site B [ion binding]; other site 509169010915 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 509169010916 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 509169010917 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 509169010918 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 509169010919 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 509169010920 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 509169010921 Predicted periplasmic protein (DUF2233); Region: DUF2233; cl10481 509169010922 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 509169010923 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169010924 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 509169010925 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169010926 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 509169010927 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03002 509169010928 PPIC-type PPIASE domain; Region: Rotamase; cl08278 509169010929 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 509169010930 putative active site [active] 509169010931 catalytic site [active] 509169010932 putative metal binding site [ion binding]; other site 509169010933 oligomer interface [polypeptide binding]; other site 509169010934 Sodium:solute symporter family; Region: SSF; cl00456 509169010935 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 509169010936 Protein of unknown function, DUF485; Region: DUF485; cl01231 509169010937 Porin subfamily; Region: Porin_2; pfam02530 509169010938 acetyl-CoA synthetase; Provisional; Region: PRK00174 509169010939 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 509169010940 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 509169010941 Acetyl-CoA Synthetase and similar proteins; Region: Acetyl-CoA_Synthetase; cl15355 509169010942 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 509169010943 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 509169010944 active site 509169010945 phosphorylation site [posttranslational modification] 509169010946 intermolecular recognition site; other site 509169010947 dimerization interface [polypeptide binding]; other site 509169010948 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 509169010949 DNA binding residues [nucleotide binding] 509169010950 dimerization interface [polypeptide binding]; other site 509169010951 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 509169010952 catalytic residues [active] 509169010953 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_3; cd09002 509169010954 Glycosyl hydrolases family 43; Region: Glyco_hydro_43; pfam04616 509169010955 active site 509169010956 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 509169010957 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 509169010958 active site 509169010959 catalytic tetrad [active] 509169010960 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 509169010961 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 509169010962 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 509169010963 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 509169010964 NAD binding site [chemical binding]; other site 509169010965 homotetramer interface [polypeptide binding]; other site 509169010966 homodimer interface [polypeptide binding]; other site 509169010967 active site 509169010968 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 509169010969 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 509169010970 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 509169010971 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 509169010972 putative active site pocket [active] 509169010973 metal binding site [ion binding]; metal-binding site 509169010974 Domain of unknown function (DUF718); Region: DUF718; cl01281 509169010975 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 509169010976 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169010977 putative substrate translocation pore; other site 509169010978 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169010979 Bacterial transcriptional regulator; Region: IclR; pfam01614 509169010980 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 509169010981 Active site serine [active] 509169010982 Predicted membrane protein [Function unknown]; Region: COG1971 509169010983 Domain of unknown function DUF; Region: DUF204; pfam02659 509169010984 Domain of unknown function DUF; Region: DUF204; pfam02659 509169010985 Sodium:solute symporter family; Region: SSF; cl00456 509169010986 Sodium:solute symporter family; Region: SSF; cl00456 509169010987 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 509169010988 PAS fold; Region: PAS_7; pfam12860 509169010989 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169010990 dimer interface [polypeptide binding]; other site 509169010991 phosphorylation site [posttranslational modification] 509169010992 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 509169010993 ATP binding site [chemical binding]; other site 509169010994 Mg2+ binding site [ion binding]; other site 509169010995 G-X-G motif; other site 509169010996 Response regulator receiver domain; Region: Response_reg; pfam00072 509169010997 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 509169010998 active site 509169010999 phosphorylation site [posttranslational modification] 509169011000 intermolecular recognition site; other site 509169011001 dimerization interface [polypeptide binding]; other site 509169011002 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 509169011003 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 509169011004 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 509169011005 putative symporter YagG; Provisional; Region: PRK09669 509169011006 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 509169011007 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 509169011008 ATP-binding site [chemical binding]; other site 509169011009 Gluconate-6-phosphate binding site [chemical binding]; other site 509169011010 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 509169011011 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 509169011012 Trp docking motif [polypeptide binding]; other site 509169011013 active site 509169011014 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; cl00505 509169011015 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 509169011016 Family of unknown function (DUF490); Region: DUF490; pfam04357 509169011017 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 509169011018 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 509169011019 Surface antigen; Region: Bac_surface_Ag; cl03097 509169011020 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 509169011021 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 509169011022 dimer interface [polypeptide binding]; other site 509169011023 motif 1; other site 509169011024 active site 509169011025 motif 2; other site 509169011026 motif 3; other site 509169011027 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 509169011028 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 509169011029 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 509169011030 Walker A motif; other site 509169011031 ATP binding site [chemical binding]; other site 509169011032 Walker B motif; other site 509169011033 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 509169011034 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 509169011035 catalytic triad [active] 509169011036 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 509169011037 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 509169011038 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 509169011039 Family of unknown function (DUF500); Region: DUF500; cl01109 509169011040 ferrochelatase; Reviewed; Region: hemH; PRK00035 509169011041 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 509169011042 C-terminal domain interface [polypeptide binding]; other site 509169011043 active site 509169011044 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 509169011045 active site 509169011046 N-terminal domain interface [polypeptide binding]; other site 509169011047 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 509169011048 Lipase. 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 becoming...; Region: Lipase; cl14883 509169011049 Protein of unknown function DUF45; Region: DUF45; cl00636 509169011050 Putative exonuclease, RdgC; Region: RdgC; cl01122 509169011051 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 509169011052 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 509169011053 Ligand Binding Site [chemical binding]; other site 509169011054 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 509169011055 Transcriptional regulators [Transcription]; Region: PurR; COG1609 509169011056 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 509169011057 DNA binding site [nucleotide binding] 509169011058 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 509169011059 putative dimerization interface [polypeptide binding]; other site 509169011060 putative ligand binding site [chemical binding]; other site 509169011061 Alpha-glucuronidase [Carbohydrate transport and metabolism]; Region: AguA; COG3661 509169011062 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 509169011063 Glycosyl hydrolase family 67 C-terminus; Region: Glyco_hydro_67C; pfam07477 509169011064 Domain of unknown function (DUF303); Region: DUF303; pfam03629 509169011065 Domain of unknown function (DUF303); Region: DUF303; pfam03629 509169011066 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 509169011067 The starvation sensing protein RpsA from E.coli and its homologs are lactonizing enzymes whose putative targets are homoserine lactone (HSL)-derivative. They are part of the mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of...; Region: rpsA; cd03322 509169011068 putative active site pocket [active] 509169011069 putative metal binding site [ion binding]; other site 509169011070 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 509169011071 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 509169011072 inhibitor binding site; inhibition site 509169011073 active site 509169011074 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 509169011075 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 509169011076 PA14 domain; Region: PA14; cl08459 509169011077 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 509169011078 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 509169011079 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 509169011080 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 509169011081 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 509169011082 Uncharacterized conserved protein [Function unknown]; Region: COG4748 509169011083 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 509169011084 BLMT, a bleomycin resistance protein encoded on the transposon Tn5, and similar proteins; Region: BLMT_like; cd08350 509169011085 dimer interface [polypeptide binding]; other site 509169011086 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 509169011087 ligand binding site [chemical binding]; other site 509169011088 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; cl01792 509169011089 Kelch motif; Region: Kelch_1; cl02701 509169011090 Kelch motif; Region: Kelch_1; cl02701 509169011091 Kelch motif; Region: Kelch_1; cl02701 509169011092 Kelch motif; Region: Kelch_1; cl02701 509169011093 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 509169011094 Strictosidine synthase; Region: Str_synth; pfam03088 509169011095 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 509169011096 putative transposase OrfB; Reviewed; Region: PHA02517 509169011097 Integrase core domain; Region: rve; cl01316 509169011098 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169011099 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 509169011100 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 509169011101 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 509169011102 domain; Region: Glyco_hydro_2; pfam00703 509169011103 Glucuronate isomerase; Region: UxaC; cl00829 509169011104 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 509169011105 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169011106 D-galactonate transporter; Region: 2A0114; TIGR00893 509169011107 putative substrate translocation pore; other site 509169011108 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 509169011109 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169011110 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169011111 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 509169011112 putative symporter YagG; Provisional; Region: PRK09669 509169011113 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 509169011114 substrate binding site [chemical binding]; other site 509169011115 active site 509169011116 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 509169011117 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 509169011118 2-enoyl thioester reductase (ETR) like proteins, child 2; Region: ETR_like_2; cd08292 509169011119 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 509169011120 putative NAD(P) binding site [chemical binding]; other site 509169011121 putative dimer interface [polypeptide binding]; other site 509169011122 Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]; Region: PlsB; COG2937 509169011123 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 509169011124 putative acyl-acceptor binding pocket; other site 509169011125 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 509169011126 DNA binding site [nucleotide binding] 509169011127 domain linker motif; other site 509169011128 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 509169011129 dimerization interface [polypeptide binding]; other site 509169011130 ligand binding site [chemical binding]; other site 509169011131 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 509169011132 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169011133 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169011134 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169011135 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 509169011136 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 509169011137 active site 509169011138 dimer interface [polypeptide binding]; other site 509169011139 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 509169011140 active site 509169011141 motif I; other site 509169011142 motif II; other site 509169011143 hypothetical protein; Provisional; Region: PRK11239 509169011144 Protein of unknown function, DUF480; Region: DUF480; cl01209 509169011145 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 509169011146 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 509169011147 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169011148 Integrase core domain; Region: rve; cl01316 509169011149 putative transposase OrfB; Reviewed; Region: PHA02517 509169011150 Integrase core domain; Region: rve; cl01316 509169011151 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169011152 Thymidine kinase; Region: TK; cl00631 509169011153 GAF domain; Region: GAF; cl00853 509169011154 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 509169011155 dimer interface [polypeptide binding]; other site 509169011156 phosphorylation site [posttranslational modification] 509169011157 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 509169011158 ATP binding site [chemical binding]; other site 509169011159 Mg2+ binding site [ion binding]; other site 509169011160 G-X-G motif; other site 509169011161 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 509169011162 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 509169011163 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 509169011164 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 509169011165 DNA binding site [nucleotide binding] 509169011166 catalytic residue [active] 509169011167 H2TH interface [polypeptide binding]; other site 509169011168 putative catalytic residues [active] 509169011169 turnover-facilitating residue; other site 509169011170 intercalation triad [nucleotide binding]; other site 509169011171 8OG recognition residue [nucleotide binding]; other site 509169011172 putative reading head residues; other site 509169011173 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 509169011174 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 509169011175 Benzoate membrane transport protein; Region: BenE; cl15432 509169011176 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 509169011177 PAS fold; Region: PAS_2; pfam08446 509169011178 GAF domain; Region: GAF; cl00853 509169011179 Phytochrome region; Region: PHY; pfam00360 509169011180 PAS fold; Region: PAS_4; pfam08448 509169011181 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 509169011182 putative active site [active] 509169011183 heme pocket [chemical binding]; other site 509169011184 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 509169011185 heme binding pocket [chemical binding]; other site 509169011186 heme ligand [chemical binding]; other site 509169011187 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169011188 Major Facilitator Superfamily; Region: MFS_1; pfam07690 509169011189 putative substrate translocation pore; other site 509169011190 lytic murein transglycosylase; Region: MltB_2; TIGR02283 509169011191 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 509169011192 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 509169011193 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 509169011194 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 509169011195 active site 509169011196 phosphate binding residues; other site 509169011197 catalytic residues [active] 509169011198 hypothetical protein; Provisional; Region: PRK04233 509169011199 SEC-C motif; Region: SEC-C; pfam02810 509169011200 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 509169011201 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 509169011202 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 509169011203 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 509169011204 N-terminal plug; other site 509169011205 ligand-binding site [chemical binding]; other site 509169011206 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 509169011207 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, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 509169011208 Walker A/P-loop; other site 509169011209 ATP binding site [chemical binding]; other site 509169011210 Q-loop/lid; other site 509169011211 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 509169011212 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 509169011213 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 509169011214 GTP cyclohydrolase I; Provisional; Region: PLN03044 509169011215 active site 509169011216 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169011217 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 509169011218 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 509169011219 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 509169011220 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 509169011221 Fusaric acid resistance protein family; Region: FUSC; pfam04632 509169011222 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 509169011223 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169011224 putative substrate translocation pore; other site 509169011225 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 509169011226 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 509169011227 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 509169011228 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 509169011229 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 509169011230 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 509169011231 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 509169011232 putative active site [active] 509169011233 catalytic site [active] 509169011234 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 509169011235 putative active site [active] 509169011236 catalytic site [active] 509169011237 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 509169011238 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 509169011239 Protein of unknown function (DUF3603); Region: DUF3603; pfam12227 509169011240 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 509169011243 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 509169011244 Leucine-rich repeats; other site 509169011245 Substrate binding site [chemical binding]; other site 509169011247 Integrase core domain; Region: rve; cl01316 509169011248 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 509169011249 non-specific DNA binding site [nucleotide binding]; other site 509169011250 salt bridge; other site 509169011251 sequence-specific DNA binding site [nucleotide binding]; other site 509169011252 PSRA_1: Pseudouridine synthase, a subgroup of the RluA family. This group is comprised of bacterial proteins assigned to the RluA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PSRA_1; cd02558 509169011253 probable active site [active] 509169011254 Restriction endonuclease; Region: Mrr_cat; cl00747 509169011255 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 509169011256 DNA topoisomerase I; Validated; Region: PRK05582 509169011257 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 509169011258 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 509169011259 P-loop; other site 509169011260 Magnesium ion binding site [ion binding]; other site 509169011261 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 509169011262 Magnesium ion binding site [ion binding]; other site 509169011263 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 509169011264 Peptidase family M23; Region: Peptidase_M23; pfam01551 509169011265 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 509169011266 DUF based on B. Theta Gene description; Region: DUF3876; pfam12992 509169011267 Antitoxin ParD; Region: ParD; pfam09386 509169011268 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 509169011269 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 509169011270 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 509169011271 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169011272 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169011273 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 509169011274 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169011275 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 509169011276 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; cl15476 509169011277 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 509169011278 Calx-beta domain; Region: Calx-beta; cl02522 509169011279 Calx-beta domain; Region: Calx-beta; cl02522 509169011280 Putative Ig domain; Region: He_PIG; pfam05345 509169011281 Putative Ig domain; Region: He_PIG; pfam05345 509169011282 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 509169011283 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 509169011284 Putative Ig domain; Region: He_PIG; pfam05345 509169011285 Autotransporter beta-domain; Region: Autotransporter; cl02365 509169011286 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 509169011287 Phage Tail Collar Domain; Region: Collar; pfam07484 509169011288 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 509169011289 Phage Tail Collar Domain; Region: Collar; pfam07484 509169011290 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 509169011291 Phage Tail Collar Domain; Region: Collar; pfam07484 509169011292 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 509169011293 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 509169011294 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 509169011295 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 509169011296 Walker A/P-loop; other site 509169011297 ATP binding site [chemical binding]; other site 509169011298 Q-loop/lid; other site 509169011299 ABC transporter signature motif; other site 509169011300 Walker B; other site 509169011301 D-loop; other site 509169011302 H-loop/switch region; other site 509169011303 Domain of unknown function DUF140; Region: DUF140; cl00510 509169011304 mce related protein; Region: MCE; cl15431 509169011305 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 509169011306 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 509169011307 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 509169011308 anti sigma factor interaction site; other site 509169011309 regulatory phosphorylation site [posttranslational modification]; other site 509169011310 VacJ like lipoprotein; Region: VacJ; cl01073 509169011311 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 509169011312 catalytic residues [active] 509169011313 dimer interface [polypeptide binding]; other site 509169011314 RmuC family; Region: RmuC; pfam02646 509169011315 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 509169011316 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 509169011317 putative NAD(P) binding site [chemical binding]; other site 509169011318 dimer interface [polypeptide binding]; other site 509169011319 transcriptional regulator; Provisional; Region: PRK10632 509169011320 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl00088 509169011321 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 509169011322 putative effector binding pocket; other site 509169011323 dimerization interface [polypeptide binding]; other site 509169011324 ethanolamine permease; Region: 2A0305; TIGR00908 509169011325 Amino acid permease; Region: AA_permease; cl00524 509169011326 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 509169011327 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 509169011328 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169011329 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169011330 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 509169011331 GAF domain; Region: GAF; cl00853 509169011332 hypothetical protein; Provisional; Region: PRK13560 509169011333 PAS domain S-box; Region: sensory_box; TIGR00229 509169011334 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 509169011335 putative active site [active] 509169011336 heme pocket [chemical binding]; other site 509169011337 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 509169011338 metal binding site [ion binding]; metal-binding site 509169011339 active site 509169011340 I-site; other site 509169011341 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 509169011342 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 509169011343 Glycerate kinase family; Region: Gly_kinase; cl00841 509169011344 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 509169011345 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 509169011346 putative substrate translocation pore; other site 509169011347 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 509169011348 active site 509169011349 dimer interface [polypeptide binding]; other site 509169011350 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 509169011351 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 509169011352 PUA domain; Region: PUA; cl00607 509169011353 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 509169011354 S-adenosylmethionine binding site [chemical binding]; other site 509169011355 Integral membrane protein TerC family; Region: TerC; cl10468 509169011356 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 509169011357 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 509169011358 putative active site [active] 509169011359 catalytic site [active] 509169011360 putative metal binding site [ion binding]; other site 509169011361 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 509169011362 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 509169011363 N-terminal plug; other site 509169011364 ligand-binding site [chemical binding]; other site 509169011365 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 509169011366 active site 509169011367 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169011368 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 509169011369 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 509169011370 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 509169011371 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 509169011372 G1 box; other site 509169011373 GTP/Mg2+ binding site [chemical binding]; other site 509169011374 Switch I region; other site 509169011375 G2 box; other site 509169011376 Switch II region; other site 509169011377 G3 box; other site 509169011378 G4 box; other site 509169011379 G5 box; other site 509169011380 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 509169011381 outer membrane N-deacetylase; Provisional; Region: pgaB; PRK14582 509169011382 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 509169011383 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 509169011384 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 509169011385 binding surface 509169011386 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 509169011387 TPR motif; other site 509169011388 membrane protein insertase; Provisional; Region: PRK01318 509169011389 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 509169011390 Ribonuclease P; Region: Ribonuclease_P; cl00457 509169011391 Ribosomal protein L34; Region: Ribosomal_L34; cl00370