-- dump date 20120504_144519 -- class Genbank::misc_feature -- table misc_feature_note -- id note 59374000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 59374000002 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 59374000003 Walker A motif; other site 59374000004 ATP binding site [chemical binding]; other site 59374000005 Walker B motif; other site 59374000006 arginine finger; other site 59374000007 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 59374000008 DnaA box-binding interface [nucleotide binding]; other site 59374000009 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 59374000010 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374000011 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 59374000012 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 59374000013 Protein export membrane protein; Region: SecD_SecF; cl14618 59374000014 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 59374000015 trimer interface [polypeptide binding]; other site 59374000016 active site 59374000017 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cl03181 59374000018 active site 59374000019 RF-1 domain; Region: RF-1; cl02875 59374000020 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 59374000021 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 59374000022 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 59374000023 G1 box; other site 59374000024 putative GEF interaction site [polypeptide binding]; other site 59374000025 GTP/Mg2+ binding site [chemical binding]; other site 59374000026 Switch I region; other site 59374000027 G2 box; other site 59374000028 G3 box; other site 59374000029 Switch II region; other site 59374000030 G4 box; other site 59374000031 G5 box; other site 59374000032 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 59374000033 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 59374000034 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 59374000035 substrate binding site [chemical binding]; other site 59374000036 dimer interface [polypeptide binding]; other site 59374000037 ATP binding site [chemical binding]; other site 59374000038 MgtC family; Region: MgtC; cl12207 59374000039 Predicted membrane protein [Function unknown]; Region: COG3174 59374000040 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374000041 metal binding site [ion binding]; metal-binding site 59374000042 active site 59374000043 I-site; other site 59374000044 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 59374000045 folate binding site [chemical binding]; other site 59374000046 NADP+ binding site [chemical binding]; other site 59374000047 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 59374000048 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 59374000049 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 59374000050 active site 59374000051 metal binding site [ion binding]; metal-binding site 59374000052 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 59374000053 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 59374000054 tetramer (dimer of dimers) interface [polypeptide binding]; other site 59374000055 active site 59374000056 dimer interface [polypeptide binding]; other site 59374000057 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 59374000058 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 59374000059 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 59374000060 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374000061 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374000062 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374000063 RelB antitoxin; Region: RelB; cl01171 59374000064 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 59374000065 Protein of unknown function (DUF3573); Region: DUF3573; pfam12097 59374000066 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 59374000067 Peptidase family U32; Region: Peptidase_U32; cl03113 59374000068 Collagenase; Region: DUF3656; pfam12392 59374000069 Peptidase family U32; Region: Peptidase_U32; cl03113 59374000070 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 59374000071 binding surface 59374000072 TPR motif; other site 59374000073 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 59374000074 binding surface 59374000075 TPR motif; other site 59374000076 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 59374000077 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 59374000078 binding surface 59374000079 TPR motif; other site 59374000080 Gram-negative bacterial tonB protein; Region: TonB; cl10048 59374000081 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 59374000082 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 59374000083 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 59374000084 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 59374000085 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 59374000086 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 59374000087 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 59374000088 active site 59374000089 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 59374000090 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 59374000091 active site 59374000092 (T/H)XGH motif; other site 59374000093 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 59374000094 GTPase/OB domain interface [polypeptide binding]; other site 59374000095 ribosome small subunit-dependent GTPase A; Region: TIGR00157 59374000096 GTPase/Zn-binding domain interface [polypeptide binding]; other site 59374000097 GTP/Mg2+ binding site [chemical binding]; other site 59374000098 G4 box; other site 59374000099 G5 box; other site 59374000100 G1 box; other site 59374000101 Switch I region; other site 59374000102 G2 box; other site 59374000103 G3 box; other site 59374000104 Switch II region; other site 59374000105 UbiA prenyltransferase family; Region: UbiA; cl00337 59374000106 amidophosphoribosyltransferase; Region: purF; TIGR01134 59374000107 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 59374000108 active site 59374000109 tetramer interface [polypeptide binding]; other site 59374000110 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 59374000111 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 59374000112 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374000113 NAD(P) binding site [chemical binding]; other site 59374000114 active site 59374000115 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 59374000116 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 59374000117 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 59374000118 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 59374000119 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 59374000120 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 59374000121 Coenzyme A binding pocket [chemical binding]; other site 59374000122 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; cl00630 59374000123 putative active site [active] 59374000124 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 59374000125 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 59374000126 AsmA family; Region: AsmA; pfam05170 59374000127 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 59374000128 AsmA family; Region: AsmA; pfam05170 59374000129 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 59374000130 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 59374000131 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 59374000132 active site 59374000133 Substrate binding site; other site 59374000134 Mg++ binding site; other site 59374000135 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 59374000136 putative CoA binding site [chemical binding]; other site 59374000137 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 59374000138 oligomerisation interface [polypeptide binding]; other site 59374000139 mobile loop; other site 59374000140 roof hairpin; other site 59374000141 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 59374000142 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 59374000143 ring oligomerisation interface [polypeptide binding]; other site 59374000144 ATP/Mg binding site [chemical binding]; other site 59374000145 stacking interactions; other site 59374000146 hinge regions; other site 59374000147 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 59374000148 Transglycosylase; Region: Transgly; cl07896 59374000149 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 59374000150 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 59374000151 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 59374000152 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 59374000153 substrate binding site [chemical binding]; other site 59374000154 ligand binding site [chemical binding]; other site 59374000155 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 59374000156 substrate binding site [chemical binding]; other site 59374000157 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 59374000158 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 59374000159 non-specific DNA binding site [nucleotide binding]; other site 59374000160 salt bridge; other site 59374000161 sequence-specific DNA binding site [nucleotide binding]; other site 59374000162 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 59374000163 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 59374000164 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 59374000165 Coenzyme A binding pocket [chemical binding]; other site 59374000166 Predicted membrane protein [Function unknown]; Region: COG3428 59374000167 Bacterial membrane flanked domain; Region: DUF304; cl01348 59374000168 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 59374000169 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 59374000170 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 59374000171 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 59374000172 active site 59374000173 LabA_like proteins; Region: LabA_like/DUF88; cl10034 59374000174 putative metal binding site [ion binding]; other site 59374000175 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cl14879 59374000176 anaerobic ribonucleoside-triphosphate reductase; Region: NrdD; TIGR02487 59374000177 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 59374000178 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 59374000179 metal ion-dependent adhesion site (MIDAS); other site 59374000180 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 59374000181 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 59374000182 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374000183 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 59374000184 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 59374000185 active site 59374000186 MatE; Region: MatE; cl10513 59374000187 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 59374000188 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 59374000189 inhibitor-cofactor binding pocket; inhibition site 59374000190 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374000191 catalytic residue [active] 59374000192 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 59374000193 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 59374000194 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 59374000195 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 59374000196 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 59374000197 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 59374000198 catalytic residues [active] 59374000199 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 59374000200 quinone interaction residues [chemical binding]; other site 59374000201 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 59374000202 active site 59374000203 catalytic residues [active] 59374000204 FMN binding site [chemical binding]; other site 59374000205 substrate binding site [chemical binding]; other site 59374000206 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 59374000207 M20 Dipeptidases; Region: M20_Dipept_like; cd03893 59374000208 active site 59374000209 metal binding site [ion binding]; metal-binding site 59374000210 dimer interface [polypeptide binding]; other site 59374000211 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 59374000212 NAD+ binding site [chemical binding]; other site 59374000213 substrate binding site [chemical binding]; other site 59374000214 Zn binding site [ion binding]; other site 59374000215 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374000216 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 59374000217 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 59374000218 Walker A/P-loop; other site 59374000219 ATP binding site [chemical binding]; other site 59374000220 Q-loop/lid; other site 59374000221 ABC transporter signature motif; other site 59374000222 Walker B; other site 59374000223 D-loop; other site 59374000224 H-loop/switch region; other site 59374000225 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 59374000226 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 59374000227 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 59374000228 dimer interface [polypeptide binding]; other site 59374000229 conserved gate region; other site 59374000230 putative PBP binding loops; other site 59374000231 ABC-ATPase subunit interface; other site 59374000232 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 59374000233 radical SAM enzyme, rSAM/lipoprotein system; Region: rSAM_w_lipo; TIGR04133 59374000234 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 59374000235 FeS/SAM binding site; other site 59374000236 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; cl14869 59374000237 Surface antigen; Region: Bac_surface_Ag; cl03097 59374000238 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 59374000239 aspartate aminotransferase; Provisional; Region: PRK05764 59374000240 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 59374000241 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374000242 homodimer interface [polypeptide binding]; other site 59374000243 catalytic residue [active] 59374000244 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 59374000245 phosphopeptide binding site; other site 59374000246 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 59374000247 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374000248 Walker A/P-loop; other site 59374000249 ATP binding site [chemical binding]; other site 59374000250 Q-loop/lid; other site 59374000251 ABC transporter signature motif; other site 59374000252 Walker B; other site 59374000253 D-loop; other site 59374000254 H-loop/switch region; other site 59374000255 ABC-2 type transporter; Region: ABC2_membrane; cl11417 59374000256 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 59374000257 Catalytic domain of Protein Kinases; Region: PKc; cd00180 59374000258 active site 59374000259 ATP binding site [chemical binding]; other site 59374000260 substrate binding site [chemical binding]; other site 59374000261 activation loop (A-loop); other site 59374000262 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 59374000263 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 59374000264 TPR motif; other site 59374000265 binding surface 59374000266 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 59374000267 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 59374000268 binding surface 59374000269 TPR motif; other site 59374000270 Domain of Unknown Function with PDB structure; Region: DUF3857; pfam12969 59374000271 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 59374000272 active site 59374000273 metal binding site [ion binding]; metal-binding site 59374000274 homotetramer interface [polypeptide binding]; other site 59374000275 Nucleoside recognition; Region: Gate; cl00486 59374000276 Nucleoside recognition; Region: Gate; cl00486 59374000277 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374000278 metal binding site [ion binding]; metal-binding site 59374000279 active site 59374000280 I-site; other site 59374000281 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 59374000282 Domain of unknown function DUF; Region: DUF204; pfam02659 59374000283 Domain of unknown function DUF; Region: DUF204; pfam02659 59374000284 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 59374000285 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 59374000286 nucleotide binding pocket [chemical binding]; other site 59374000287 K-X-D-G motif; other site 59374000288 catalytic site [active] 59374000289 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 59374000290 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 59374000291 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; cl00038 59374000292 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374000293 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374000294 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 59374000295 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 59374000296 RmuC family; Region: RmuC; pfam02646 59374000297 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 59374000298 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 59374000299 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 59374000300 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 59374000301 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 59374000302 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 59374000303 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 59374000304 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 59374000305 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 59374000306 metal ion-dependent adhesion site (MIDAS); other site 59374000307 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 59374000308 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 59374000309 active site 59374000310 ATP binding site [chemical binding]; other site 59374000311 substrate binding site [chemical binding]; other site 59374000312 activation loop (A-loop); other site 59374000313 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 59374000314 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 59374000315 chorismate binding enzyme; Region: Chorismate_bind; cl10555 59374000316 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK14607 59374000317 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 59374000318 glutamine binding [chemical binding]; other site 59374000319 catalytic triad [active] 59374000320 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 59374000321 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 59374000322 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 59374000323 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 59374000324 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 59374000325 CRISPR/Cas system-associated protein Cas1; Region: Cas1_II; cd09720 59374000326 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 59374000327 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 59374000328 Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Energy production and conversion]; Region: DsrA; COG2221 59374000329 4Fe-4S binding domain; Region: Fer4; cl02805 59374000330 4Fe-4S binding domain; Region: Fer4; cl02805 59374000331 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 59374000332 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374000333 domain; Region: Succ_DH_flav_C; pfam02910 59374000334 Ferredoxin [Energy production and conversion]; Region: COG1146 59374000335 4Fe-4S binding domain; Region: Fer4; cl02805 59374000336 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 59374000337 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 59374000338 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 59374000339 Active Sites [active] 59374000340 sulfate adenylyltransferase, large subunit; Region: CysN; TIGR02034 59374000341 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 59374000342 CysD dimerization site [polypeptide binding]; other site 59374000343 G1 box; other site 59374000344 putative GEF interaction site [polypeptide binding]; other site 59374000345 GTP/Mg2+ binding site [chemical binding]; other site 59374000346 Switch I region; other site 59374000347 G2 box; other site 59374000348 G3 box; other site 59374000349 Switch II region; other site 59374000350 G4 box; other site 59374000351 G5 box; other site 59374000352 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 59374000353 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 59374000354 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 59374000355 sulfate ABC transporter, permease protein CysT; Region: permease_CysT; TIGR02139 59374000356 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 59374000357 dimer interface [polypeptide binding]; other site 59374000358 conserved gate region; other site 59374000359 putative PBP binding loops; other site 59374000360 ABC-ATPase subunit interface; other site 59374000361 sulfate transport protein; Provisional; Region: cysT; CHL00187 59374000362 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 59374000363 dimer interface [polypeptide binding]; other site 59374000364 conserved gate region; other site 59374000365 putative PBP binding loops; other site 59374000366 ABC-ATPase subunit interface; other site 59374000367 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 59374000368 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374000369 Walker A/P-loop; other site 59374000370 ATP binding site [chemical binding]; other site 59374000371 Q-loop/lid; other site 59374000372 ABC transporter signature motif; other site 59374000373 Walker B; other site 59374000374 D-loop; other site 59374000375 H-loop/switch region; other site 59374000376 TOBE domain; Region: TOBE_2; cl01440 59374000377 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 59374000378 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 59374000379 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 59374000380 homodimer interface [polypeptide binding]; other site 59374000381 substrate-cofactor binding pocket; other site 59374000382 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374000383 catalytic residue [active] 59374000384 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 59374000385 Cupin domain; Region: Cupin_2; cl09118 59374000386 biotin synthase; Region: bioB; TIGR00433 59374000387 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 59374000388 FeS/SAM binding site; other site 59374000389 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 59374000390 LysE type translocator; Region: LysE; cl00565 59374000391 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 59374000392 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 59374000393 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 59374000394 homodimer interface [polypeptide binding]; other site 59374000395 substrate-cofactor binding pocket; other site 59374000396 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374000397 catalytic residue [active] 59374000398 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 59374000399 CPxP motif; other site 59374000400 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 59374000401 thiS-thiF/thiG interaction site; other site 59374000402 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 59374000403 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 59374000404 ATP binding site [chemical binding]; other site 59374000405 substrate interface [chemical binding]; other site 59374000406 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 59374000407 MPN+ (JAMM) motif; other site 59374000408 Zinc-binding site [ion binding]; other site 59374000409 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 59374000410 MPN+ (JAMM) motif; other site 59374000411 Zinc-binding site [ion binding]; other site 59374000412 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 59374000413 Ubiquitin-like proteins; Region: UBQ; cl00155 59374000414 molybdopterin biosynthesis-like protein MoeZ; Validated; Region: PRK07878 59374000415 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 59374000416 ATP binding site [chemical binding]; other site 59374000417 substrate interface [chemical binding]; other site 59374000418 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 59374000419 active site residue [active] 59374000420 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 59374000421 Aminotransferase class-V; Region: Aminotran_5; pfam00266 59374000422 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 59374000423 catalytic residue [active] 59374000424 serine O-acetyltransferase; Region: cysE; TIGR01172 59374000425 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 59374000426 trimer interface [polypeptide binding]; other site 59374000427 active site 59374000428 substrate binding site [chemical binding]; other site 59374000429 CoA binding site [chemical binding]; other site 59374000430 Pectate lyase; Region: Pec_lyase_C; cl01593 59374000431 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 59374000432 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 59374000433 active site 59374000434 ribulose/triose binding site [chemical binding]; other site 59374000435 phosphate binding site [ion binding]; other site 59374000436 substrate (anthranilate) binding pocket [chemical binding]; other site 59374000437 product (indole) binding pocket [chemical binding]; other site 59374000438 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 59374000439 active site 59374000440 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 59374000441 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 59374000442 DHHA2 domain; Region: DHHA2; pfam02833 59374000443 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 59374000444 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 59374000445 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374000446 catalytic residue [active] 59374000447 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 59374000448 substrate binding site [chemical binding]; other site 59374000449 active site 59374000450 catalytic residues [active] 59374000451 heterodimer interface [polypeptide binding]; other site 59374000452 aconitate hydratase; Validated; Region: PRK07229 59374000453 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 59374000454 substrate binding site [chemical binding]; other site 59374000455 ligand binding site [chemical binding]; other site 59374000456 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 59374000457 substrate binding site [chemical binding]; other site 59374000458 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374000459 metal binding site [ion binding]; metal-binding site 59374000460 active site 59374000461 I-site; other site 59374000462 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 59374000463 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 59374000464 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 59374000465 putative substrate translocation pore; other site 59374000466 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 59374000467 putative acyl-acceptor binding pocket; other site 59374000468 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 59374000469 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 59374000470 homotrimer interaction site [polypeptide binding]; other site 59374000471 putative active site [active] 59374000472 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 59374000473 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 59374000474 MutS domain I; Region: MutS_I; pfam01624 59374000475 MutS domain II; Region: MutS_II; pfam05188 59374000476 MutS family domain IV; Region: MutS_IV; pfam05190 59374000477 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 59374000478 Walker A/P-loop; other site 59374000479 ATP binding site [chemical binding]; other site 59374000480 Q-loop/lid; other site 59374000481 ABC transporter signature motif; other site 59374000482 Walker B; other site 59374000483 D-loop; other site 59374000484 H-loop/switch region; other site 59374000485 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 59374000486 gamma-glutamyl kinase; Provisional; Region: PRK05429 59374000487 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 59374000488 nucleotide binding site [chemical binding]; other site 59374000489 homotetrameric interface [polypeptide binding]; other site 59374000490 putative phosphate binding site [ion binding]; other site 59374000491 putative allosteric binding site; other site 59374000492 PUA domain; Region: PUA; cl00607 59374000493 ATP-dependent helicase HepA; Validated; Region: PRK04914 59374000494 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 59374000495 ATP binding site [chemical binding]; other site 59374000496 putative Mg++ binding site [ion binding]; other site 59374000497 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 59374000498 nucleotide binding region [chemical binding]; other site 59374000499 ATP-binding site [chemical binding]; other site 59374000500 GYF domain: contains conserved Gly-Tyr-Phe residues; Proline-binding domain in CD2-binding and other proteins. Involved in signaling lymphocyte activity. Also present in other unrelated proteins (mainly unknown) derived from diverse eukaryotic species; Region: GYF; cl00072 59374000501 RDD family; Region: RDD; cl00746 59374000502 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 59374000503 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 59374000504 hinge; other site 59374000505 active site 59374000506 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 59374000507 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 59374000508 Walker A/P-loop; other site 59374000509 ATP binding site [chemical binding]; other site 59374000510 Q-loop/lid; other site 59374000511 ABC transporter signature motif; other site 59374000512 Walker B; other site 59374000513 D-loop; other site 59374000514 H-loop/switch region; other site 59374000515 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 59374000516 dimer interface [polypeptide binding]; other site 59374000517 putative PBP binding regions; other site 59374000518 ABC-ATPase subunit interface; other site 59374000519 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 59374000520 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 59374000521 ligand binding site [chemical binding]; other site 59374000522 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 59374000523 TolB amino-terminal domain; Region: TolB_N; cl00639 59374000524 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 59374000525 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 59374000526 Gram-negative bacterial tonB protein; Region: TonB; cl10048 59374000527 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 59374000528 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 59374000529 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 59374000530 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 59374000531 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 59374000532 Endonuclease I; Region: Endonuclease_1; cl01003 59374000533 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 59374000534 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 59374000535 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 59374000536 RNA binding surface [nucleotide binding]; other site 59374000537 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 59374000538 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 59374000539 DNA-binding site [nucleotide binding]; DNA binding site 59374000540 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 59374000541 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374000542 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 59374000543 ATP binding site [chemical binding]; other site 59374000544 active site 59374000545 substrate binding site [chemical binding]; other site 59374000546 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 59374000547 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 59374000548 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 59374000549 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 59374000550 NPCBM/NEW2 domain; Region: NPCBM; cl07060 59374000551 radical SAM enzyme, rSAM/lipoprotein system; Region: rSAM_w_lipo; TIGR04133 59374000552 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 59374000553 FeS/SAM binding site; other site 59374000554 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; cl14869 59374000555 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 59374000556 Surface antigen; Region: Bac_surface_Ag; cl03097 59374000557 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 59374000558 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 59374000559 G1 box; other site 59374000560 GTP/Mg2+ binding site [chemical binding]; other site 59374000561 G2 box; other site 59374000562 Switch I region; other site 59374000563 G3 box; other site 59374000564 Switch II region; other site 59374000565 G4 box; other site 59374000566 G5 box; other site 59374000567 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 59374000568 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 59374000569 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 59374000570 inhibitor-cofactor binding pocket; inhibition site 59374000571 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374000572 catalytic residue [active] 59374000573 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 59374000574 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 59374000575 motif II; other site 59374000576 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 59374000577 DHH family; Region: DHH; pfam01368 59374000578 DHHA1 domain; Region: DHHA1; pfam02272 59374000579 LysE type translocator; Region: LysE; cl00565 59374000580 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 59374000581 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 59374000582 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 59374000583 Mg++ binding site [ion binding]; other site 59374000584 putative catalytic motif [active] 59374000585 UDP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: COG4284 59374000586 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 59374000587 active site 59374000588 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 59374000589 putative acyl-acceptor binding pocket; other site 59374000590 Smr domain; Region: Smr; cl02619 59374000591 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; cl15367 59374000592 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 59374000593 FeS/SAM binding site; other site 59374000594 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 59374000595 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 59374000596 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 59374000597 MORN repeat variant; Region: MORN_2; pfam07661 59374000598 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374000599 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 59374000600 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 59374000601 dimer interface [polypeptide binding]; other site 59374000602 active site 59374000603 metal binding site [ion binding]; metal-binding site 59374000604 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 59374000605 heterotetramer interface [polypeptide binding]; other site 59374000606 active site pocket [active] 59374000607 cleavage site 59374000608 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 59374000609 domain; Region: GreA_GreB_N; pfam03449 59374000610 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 59374000611 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 59374000612 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 59374000613 Secretin and TonB N terminus short domain; Region: STN; cl06624 59374000614 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 59374000615 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 59374000616 Pilus assembly protein, PilP; Region: PilP; cl01235 59374000617 Pilus assembly protein, PilO; Region: PilO; cl01234 59374000618 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 59374000619 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 59374000620 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 59374000621 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 59374000622 PilZ domain; Region: PilZ; cl01260 59374000623 dihydroorotase; Validated; Region: pyrC; PRK09357 59374000624 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 59374000625 active site 59374000626 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 59374000627 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 59374000628 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374000629 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 59374000630 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 59374000631 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 59374000632 active site 59374000633 Peptidase family M23; Region: Peptidase_M23; pfam01551 59374000634 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 59374000635 putative active site [active] 59374000636 putative Zn binding site [ion binding]; other site 59374000637 Bacitracin resistance protein BacA; Region: BacA; cl00858 59374000638 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 59374000639 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374000640 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374000641 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 59374000642 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 59374000643 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 59374000644 KilA-N domain; Region: KilA-N; pfam04383 59374000645 heat shock protein 90; Provisional; Region: PRK05218 59374000646 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 59374000647 ATP binding site [chemical binding]; other site 59374000648 Mg2+ binding site [ion binding]; other site 59374000649 G-X-G motif; other site 59374000650 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374000651 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374000652 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374000653 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 59374000654 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 59374000655 DNA-binding site [nucleotide binding]; DNA binding site 59374000656 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 59374000657 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374000658 homodimer interface [polypeptide binding]; other site 59374000659 catalytic residue [active] 59374000660 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 59374000661 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 59374000662 active site 59374000663 multimer interface [polypeptide binding]; other site 59374000664 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 59374000665 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 59374000666 predicted active site [active] 59374000667 catalytic triad [active] 59374000668 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 59374000669 hypothetical protein; Provisional; Region: PRK13663 59374000670 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 59374000671 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 59374000672 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374000673 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 59374000674 active site 59374000675 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 59374000676 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374000677 Domain of unknown function (DUF74); Region: DUF74; cl00426 59374000678 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 59374000679 substrate binding site; other site 59374000680 dimer interface; other site 59374000681 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 59374000682 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 59374000683 putative tRNA-binding site [nucleotide binding]; other site 59374000684 B3/4 domain; Region: B3_4; cl11458 59374000685 tRNA synthetase B5 domain; Region: B5; cl08394 59374000686 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 59374000687 dimer interface [polypeptide binding]; other site 59374000688 motif 1; other site 59374000689 motif 3; other site 59374000690 motif 2; other site 59374000691 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 59374000692 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 59374000693 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 59374000694 Walker A motif; other site 59374000695 ATP binding site [chemical binding]; other site 59374000696 Walker B motif; other site 59374000697 arginine finger; other site 59374000698 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 59374000699 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 59374000700 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 59374000701 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 59374000702 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 59374000703 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 59374000704 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374000705 Walker A motif; other site 59374000706 ATP binding site [chemical binding]; other site 59374000707 Walker B motif; other site 59374000708 DNA primase, catalytic core; Region: dnaG; TIGR01391 59374000709 CHC2 zinc finger; Region: zf-CHC2; cl15369 59374000710 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 59374000711 active site 59374000712 metal binding site [ion binding]; metal-binding site 59374000713 interdomain interaction site; other site 59374000714 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 59374000715 FAD binding domain; Region: FAD_binding_4; pfam01565 59374000716 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 59374000717 VanZ like family; Region: VanZ; cl01971 59374000718 FecR protein; Region: FecR; pfam04773 59374000719 PUA domain; Region: PUA; cl00607 59374000720 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 59374000721 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 59374000722 S-adenosylmethionine binding site [chemical binding]; other site 59374000723 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 59374000724 uncharacterized xylulose kinase-like proteins, subgroup 2; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_2; cd07805 59374000725 N- and C-terminal domain interface [polypeptide binding]; other site 59374000726 active site 59374000727 catalytic site [active] 59374000728 metal binding site [ion binding]; metal-binding site 59374000729 xylulose binding site [chemical binding]; other site 59374000730 ATP binding site [chemical binding]; other site 59374000731 putative homodimer interface [polypeptide binding]; other site 59374000732 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 59374000733 binding surface 59374000734 TPR motif; other site 59374000735 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 59374000736 binding surface 59374000737 TPR motif; other site 59374000738 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 59374000739 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374000740 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374000741 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 59374000742 active site 59374000743 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 59374000744 dimerization interface [polypeptide binding]; other site 59374000745 putative DNA binding site [nucleotide binding]; other site 59374000746 putative Zn2+ binding site [ion binding]; other site 59374000747 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 59374000748 S-adenosylmethionine binding site [chemical binding]; other site 59374000749 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 59374000750 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_1; cd10446 59374000751 GIY-YIG motif/motif A; other site 59374000752 putative active site [active] 59374000753 putative metal binding site [ion binding]; other site 59374000754 hypothetical protein, TIGR02147; Region: Fsuc_second 59374000755 ketol-acid reductoisomerase; Validated; Region: PRK05225 59374000756 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374000757 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 59374000758 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 59374000759 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374000760 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374000761 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 59374000762 DNA-binding site [nucleotide binding]; DNA binding site 59374000763 RNA-binding motif; other site 59374000764 microbial_RNases. Ribonucleases (RNAses) cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. The alignment contains fungal RNases (U2, T1, F1, Th, Pb, N1, and Ms) and...; Region: microbial_RNases; cl00212 59374000765 active site 59374000766 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 59374000767 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374000768 NAD(P) binding site [chemical binding]; other site 59374000769 active site 59374000770 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 59374000771 non-specific DNA binding site [nucleotide binding]; other site 59374000772 salt bridge; other site 59374000773 sequence-specific DNA binding site [nucleotide binding]; other site 59374000774 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 59374000775 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 59374000776 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 59374000777 Coenzyme A binding pocket [chemical binding]; other site 59374000778 Predicted membrane protein [Function unknown]; Region: COG4270 59374000779 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 59374000780 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374000781 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 59374000782 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 59374000783 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 59374000784 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 59374000785 dimer interface [polypeptide binding]; other site 59374000786 active site 59374000787 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 59374000788 catalytic residues [active] 59374000789 substrate binding site [chemical binding]; other site 59374000790 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 59374000791 Fe-S metabolism associated domain; Region: SufE; cl00951 59374000792 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 59374000793 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374000794 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374000795 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 59374000796 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 59374000797 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 59374000798 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 59374000799 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 59374000800 secreted effector protein PipB; Provisional; Region: PRK15197 59374000801 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 59374000802 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 59374000803 DNA repair protein RadA; Provisional; Region: PRK11823 59374000804 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 59374000805 Walker A motif/ATP binding site; other site 59374000806 ATP binding site [chemical binding]; other site 59374000807 Walker B motif; other site 59374000808 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374000809 metal binding site [ion binding]; metal-binding site 59374000810 active site 59374000811 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 59374000812 Response regulator receiver domain; Region: Response_reg; pfam00072 59374000813 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 59374000814 active site 59374000815 phosphorylation site [posttranslational modification] 59374000816 intermolecular recognition site; other site 59374000817 dimerization interface [polypeptide binding]; other site 59374000818 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 59374000819 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374000820 NAD(P) binding site [chemical binding]; other site 59374000821 active site 59374000822 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374000823 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 59374000824 sequence-specific DNA binding site [nucleotide binding]; other site 59374000825 salt bridge; other site 59374000826 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 59374000827 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; cl15367 59374000828 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 59374000829 S-adenosylmethionine binding site [chemical binding]; other site 59374000830 SEC-C motif; Region: SEC-C; pfam02810 59374000831 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 59374000832 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 59374000833 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374000834 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 59374000835 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374000836 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374000837 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 59374000838 Gram-negative bacterial tonB protein; Region: TonB; cl10048 59374000839 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 59374000840 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374000841 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 59374000842 GTP1/OBG; Region: GTP1_OBG; pfam01018 59374000843 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 59374000844 G1 box; other site 59374000845 GTP/Mg2+ binding site [chemical binding]; other site 59374000846 Switch I region; other site 59374000847 G2 box; other site 59374000848 G3 box; other site 59374000849 Switch II region; other site 59374000850 G4 box; other site 59374000851 G5 box; other site 59374000852 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 59374000853 IHF dimer interface [polypeptide binding]; other site 59374000854 IHF - DNA interface [nucleotide binding]; other site 59374000855 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 59374000856 SmpB-tmRNA interface; other site 59374000857 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 59374000858 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 59374000859 active site 59374000860 metal binding site [ion binding]; metal-binding site 59374000861 Domain of unknown function DUF28; Region: DUF28; cl00361 59374000862 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 59374000863 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 59374000864 active site 59374000865 substrate binding site [chemical binding]; other site 59374000866 metal binding site [ion binding]; metal-binding site 59374000867 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 59374000868 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 59374000869 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 59374000870 dimer interface [polypeptide binding]; other site 59374000871 active site 59374000872 catalytic residue [active] 59374000873 Glycosyl hydrolases family 11; Region: Glyco_hydro_11; pfam00457 59374000874 Glycosyl hydrolases family 11; Region: Glyco_hydro_11; pfam00457 59374000875 DNA gyrase subunit A; Validated; Region: PRK05560 59374000876 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 59374000877 CAP-like domain; other site 59374000878 active site 59374000879 primary dimer interface [polypeptide binding]; other site 59374000880 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 59374000881 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 59374000882 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 59374000883 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 59374000884 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 59374000885 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 59374000886 Survival protein SurE; Region: SurE; cl00448 59374000887 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 59374000888 hypothetical protein, TIGR02147; Region: Fsuc_second 59374000889 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374000890 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 59374000891 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 59374000892 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 59374000893 Dehydratase family; Region: ILVD_EDD; cl00340 59374000894 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 59374000895 anti sigma factor interaction site; other site 59374000896 regulatory phosphorylation site [posttranslational modification]; other site 59374000897 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 59374000898 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 59374000899 putative active site [active] 59374000900 nucleotide binding site [chemical binding]; other site 59374000901 nudix motif; other site 59374000902 putative metal binding site [ion binding]; other site 59374000903 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 59374000904 PA14 domain; Region: PA14; cl08459 59374000905 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 59374000906 Phosphoglycerate kinase; Region: PGK; pfam00162 59374000907 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 59374000908 substrate binding site [chemical binding]; other site 59374000909 hinge regions; other site 59374000910 ADP binding site [chemical binding]; other site 59374000911 catalytic site [active] 59374000912 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 59374000913 homooctamer interface [polypeptide binding]; other site 59374000914 active site 59374000915 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 59374000916 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374000917 SpoVG; Region: SpoVG; cl00915 59374000918 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_3; cd09620 59374000919 putative ligand binding site [chemical binding]; other site 59374000920 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 59374000921 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 59374000922 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 59374000923 pseudouridine synthase; Region: TIGR00093 59374000924 active site 59374000925 Alpha-L-arabinofuranosidase B, catalytic; Region: ArabFuran-catal; pfam09206 59374000926 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374000927 putative metal binding site [ion binding]; other site 59374000928 fumarate hydratase; Provisional; Region: PRK15389 59374000929 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 59374000930 Fumarase C-terminus; Region: Fumerase_C; cl00795 59374000931 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 59374000932 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 59374000933 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 59374000934 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 59374000935 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; cl00065 59374000936 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 59374000937 two-component VirA-like sensor kinase; Provisional; Region: PRK13837 59374000938 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 59374000939 ATP binding site [chemical binding]; other site 59374000940 Mg2+ binding site [ion binding]; other site 59374000941 G-X-G motif; other site 59374000942 Response regulator receiver domain; Region: Response_reg; pfam00072 59374000943 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 59374000944 active site 59374000945 phosphorylation site [posttranslational modification] 59374000946 intermolecular recognition site; other site 59374000947 dimerization interface [polypeptide binding]; other site 59374000948 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 59374000949 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 59374000950 active site 59374000951 phosphorylation site [posttranslational modification] 59374000952 intermolecular recognition site; other site 59374000953 dimerization interface [polypeptide binding]; other site 59374000954 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 59374000955 Walker A motif; other site 59374000956 ATP binding site [chemical binding]; other site 59374000957 Walker B motif; other site 59374000958 arginine finger; other site 59374000959 Helix-turn-helix domains; Region: HTH; cl00088 59374000960 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 59374000961 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 59374000962 ATP cone domain; Region: ATP-cone; pfam03477 59374000963 transketolase; Reviewed; Region: PRK05899 59374000964 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 59374000965 TPP-binding site [chemical binding]; other site 59374000966 dimer interface [polypeptide binding]; other site 59374000967 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 59374000968 PYR/PP interface [polypeptide binding]; other site 59374000969 dimer interface [polypeptide binding]; other site 59374000970 TPP binding site [chemical binding]; other site 59374000971 NPCBM/NEW2 domain; Region: NPCBM; cl07060 59374000972 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 59374000973 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 59374000974 Ligand binding site; other site 59374000975 Putative Catalytic site; other site 59374000976 DXD motif; other site 59374000977 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 59374000978 catalytic site [active] 59374000979 G-X2-G-X-G-K; other site 59374000980 Uncharacterized protein containing a NRPS condensation (elongation) domain [General function prediction only]; Region: COG4908 59374000981 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 59374000982 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 59374000983 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 59374000984 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 59374000985 primosome assembly protein PriA; Validated; Region: PRK05580 59374000986 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 59374000987 ATP binding site [chemical binding]; other site 59374000988 putative Mg++ binding site [ion binding]; other site 59374000989 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374000990 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 59374000991 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 59374000992 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 59374000993 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 59374000994 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 59374000995 SUA5 domain; Region: SUA5; pfam03481 59374000996 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 59374000997 Predicted amidohydrolase [General function prediction only]; Region: COG0388 59374000998 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 59374000999 active site 59374001000 catalytic triad [active] 59374001001 dimer interface [polypeptide binding]; other site 59374001002 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 59374001003 serine acetyltransferase; Provisional; Region: cysE; PRK11132 59374001004 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 59374001005 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 59374001006 trimer interface [polypeptide binding]; other site 59374001007 active site 59374001008 substrate binding site [chemical binding]; other site 59374001009 CoA binding site [chemical binding]; other site 59374001010 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 59374001011 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 59374001012 minor groove reading motif; other site 59374001013 helix-hairpin-helix signature motif; other site 59374001014 substrate binding pocket [chemical binding]; other site 59374001015 active site 59374001016 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 59374001017 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 59374001018 binding surface 59374001019 TPR motif; other site 59374001020 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 59374001021 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 59374001022 active site 59374001023 HIGH motif; other site 59374001024 nucleotide binding site [chemical binding]; other site 59374001025 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 59374001026 KMSKS motif; other site 59374001027 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 59374001028 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 59374001029 EamA-like transporter family; Region: EamA; cl01037 59374001030 EamA-like transporter family; Region: EamA; cl01037 59374001031 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 59374001032 ThiC family; Region: ThiC; cl08031 59374001033 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374001034 Walker A motif; other site 59374001035 ATP binding site [chemical binding]; other site 59374001036 Walker B motif; other site 59374001037 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 59374001038 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 59374001039 dimer interface [polypeptide binding]; other site 59374001040 phosphorylation site [posttranslational modification] 59374001041 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 59374001042 ATP binding site [chemical binding]; other site 59374001043 Mg2+ binding site [ion binding]; other site 59374001044 G-X-G motif; other site 59374001045 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 59374001046 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 59374001047 active site 59374001048 phosphorylation site [posttranslational modification] 59374001049 intermolecular recognition site; other site 59374001050 dimerization interface [polypeptide binding]; other site 59374001051 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 59374001052 DNA binding site [nucleotide binding] 59374001053 FOG: WD40-like repeat [Function unknown]; Region: COG1520 59374001054 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 59374001055 The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold; Region: PBP2_TmCBP_oligosaccharides_like; cd08509 59374001056 substrate binding site [chemical binding]; other site 59374001057 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 59374001058 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 59374001059 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 59374001060 active site 59374001061 Zn binding site [ion binding]; other site 59374001062 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 59374001063 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 59374001064 active site 59374001065 putative DNA-binding cleft [nucleotide binding]; other site 59374001066 dimer interface [polypeptide binding]; other site 59374001067 DNA primase, catalytic core; Region: dnaG; TIGR01391 59374001068 CHC2 zinc finger; Region: zf-CHC2; cl15369 59374001069 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 59374001070 active site 59374001071 metal binding site [ion binding]; metal-binding site 59374001072 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374001073 ATP binding site [chemical binding]; other site 59374001074 Walker B motif; other site 59374001075 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 59374001076 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 59374001077 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 59374001078 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 59374001079 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 59374001080 motif II; other site 59374001081 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 59374001082 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 59374001083 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 59374001084 catalytic residue [active] 59374001085 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 59374001086 Ligand Binding Site [chemical binding]; other site 59374001087 Gram-negative bacterial tonB protein; Region: TonB; cl10048 59374001088 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 59374001089 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 59374001090 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 59374001091 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 59374001092 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 59374001093 FeS/SAM binding site; other site 59374001094 TRAM domain; Region: TRAM; cl01282 59374001095 Sporulation related domain; Region: SPOR; cl10051 59374001096 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 59374001097 tetramerization interface [polypeptide binding]; other site 59374001098 active site 59374001099 Band_7_flotillin: 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. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 59374001100 Domain of unknown function DUF143; Region: DUF143; cl00519 59374001101 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 59374001102 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 59374001103 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 59374001104 active site 59374001105 HIGH motif; other site 59374001106 KMSK motif region; other site 59374001107 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 59374001108 tRNA binding surface [nucleotide binding]; other site 59374001109 anticodon binding site; other site 59374001110 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374001111 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 59374001112 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 59374001113 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 59374001114 putative active site [active] 59374001115 putative substrate binding site [chemical binding]; other site 59374001116 putative cosubstrate binding site; other site 59374001117 catalytic site [active] 59374001118 Eukaryotic cytochrome b(561); Region: Cyt_b561; cl14616 59374001119 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 59374001120 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 59374001121 ATP binding site [chemical binding]; other site 59374001122 Mg++ binding site [ion binding]; other site 59374001123 motif III; other site 59374001124 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 59374001125 nucleotide binding region [chemical binding]; other site 59374001126 ATP-binding site [chemical binding]; other site 59374001127 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 59374001128 active site 59374001129 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 59374001130 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 59374001131 elongation factor G; Reviewed; Region: PRK12740 59374001132 G1 box; other site 59374001133 putative GEF interaction site [polypeptide binding]; other site 59374001134 GTP/Mg2+ binding site [chemical binding]; other site 59374001135 Switch I region; other site 59374001136 G2 box; other site 59374001137 G3 box; other site 59374001138 Switch II region; other site 59374001139 G4 box; other site 59374001140 G5 box; other site 59374001141 mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating...; Region: mtEFG1_II_like; cd04091 59374001142 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 59374001143 mtEFG1_C: C-terminus of mitochondrial Elongation factor G1 (mtEFG1)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating...; Region: mtEFG1_C; cd04097 59374001144 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 59374001145 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 59374001146 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 59374001147 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 59374001148 Septum formation initiator; Region: DivIC; cl11433 59374001149 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 59374001150 Protein export membrane protein; Region: SecD_SecF; cl14618 59374001151 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 59374001152 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 59374001153 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 59374001154 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 59374001155 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 59374001156 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 59374001157 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 59374001158 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 59374001159 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 59374001160 active site 59374001161 HIGH motif; other site 59374001162 dimer interface [polypeptide binding]; other site 59374001163 KMSKS motif; other site 59374001164 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 59374001165 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 59374001166 putative active site [active] 59374001167 catalytic site [active] 59374001168 putative substrate binding site [chemical binding]; other site 59374001169 HRDC domain; Region: HRDC; cl02578 59374001170 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 59374001171 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 59374001172 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 59374001173 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 59374001174 CotH protein; Region: CotH; pfam08757 59374001175 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 59374001176 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 59374001177 dimer interface [polypeptide binding]; other site 59374001178 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374001179 catalytic residue [active] 59374001180 hypothetical protein, TIGR02147; Region: Fsuc_second 59374001181 Rubrerythrin [Energy production and conversion]; Region: COG1592 59374001182 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 59374001183 binuclear metal center [ion binding]; other site 59374001184 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 59374001185 iron binding site [ion binding]; other site 59374001186 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 59374001187 arginine decarboxylase; Provisional; Region: PRK05354 59374001188 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 59374001189 dimer interface [polypeptide binding]; other site 59374001190 active site 59374001191 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 59374001192 catalytic residues [active] 59374001193 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 59374001194 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 59374001195 Probable Catalytic site; other site 59374001196 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 59374001197 Probable Catalytic site; other site 59374001198 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 59374001199 active site 59374001200 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 59374001201 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 59374001202 putative NADH binding site [chemical binding]; other site 59374001203 putative active site [active] 59374001204 nudix motif; other site 59374001205 putative metal binding site [ion binding]; other site 59374001206 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 59374001207 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 59374001208 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 59374001209 active site 59374001210 motif I; other site 59374001211 motif II; other site 59374001212 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 59374001213 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 59374001214 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 59374001215 active site 59374001216 Zn binding site [ion binding]; other site 59374001217 Sulfatase; Region: Sulfatase; cl10460 59374001218 Sulfatase; Region: Sulfatase; cl10460 59374001219 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 59374001220 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 59374001221 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 59374001222 Sulfatase; Region: Sulfatase; cl10460 59374001223 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 59374001224 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; cl00148 59374001225 CAP-like domain; other site 59374001226 active site 59374001227 primary dimer interface [polypeptide binding]; other site 59374001228 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 59374001229 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374001230 Walker A/P-loop; other site 59374001231 ATP binding site [chemical binding]; other site 59374001232 Q-loop/lid; other site 59374001233 ABC transporter signature motif; other site 59374001234 Walker B; other site 59374001235 D-loop; other site 59374001236 H-loop/switch region; other site 59374001237 SurA N-terminal domain; Region: SurA_N; pfam09312 59374001238 PPIC-type PPIASE domain; Region: Rotamase; cl08278 59374001239 PPIC-type PPIASE domain; Region: Rotamase; cl08278 59374001240 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 59374001241 DEAD-like helicases superfamily; Region: DEXDc; smart00487 59374001242 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 59374001243 ATP binding site [chemical binding]; other site 59374001244 putative Mg++ binding site [ion binding]; other site 59374001245 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 59374001246 nucleotide binding region [chemical binding]; other site 59374001247 ATP-binding site [chemical binding]; other site 59374001248 Helicase associated domain (HA2); Region: HA2; cl04503 59374001249 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 59374001250 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 59374001251 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 59374001252 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 59374001253 MatE; Region: MatE; cl10513 59374001254 MatE; Region: MatE; cl10513 59374001255 DNA primase; Validated; Region: dnaG; PRK05667 59374001256 CHC2 zinc finger; Region: zf-CHC2; cl15369 59374001257 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 59374001258 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 59374001259 active site 59374001260 metal binding site [ion binding]; metal-binding site 59374001261 interdomain interaction site; other site 59374001262 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 59374001263 sulfate ABC transporter protein; Validated; Region: ycf16; CHL00131 59374001264 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 59374001265 Walker A/P-loop; other site 59374001266 ATP binding site [chemical binding]; other site 59374001267 Q-loop/lid; other site 59374001268 ABC transporter signature motif; other site 59374001269 Walker B; other site 59374001270 D-loop; other site 59374001271 H-loop/switch region; other site 59374001272 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 59374001273 putative transporter; Provisional; Region: PRK11660 59374001274 Permease family; Region: Xan_ur_permease; cl00967 59374001275 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 59374001276 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 59374001277 CPxP motif; other site 59374001278 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 59374001279 Cellulose synthase catalytic subunit A2 (CESA2) is a catalytic subunit or a catalytic subunit substitute of the cellulose synthase complex; Region: CESA_CaSu_A2; cd06437 59374001280 DXD motif; other site 59374001281 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 59374001282 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 59374001283 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 59374001284 Protein of unknown function (DUF342); Region: DUF342; pfam03961 59374001285 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 59374001286 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 59374001287 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 59374001288 hypothetical protein, TIGR02147; Region: Fsuc_second 59374001289 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 59374001290 aspartate racemase; Region: asp_race; TIGR00035 59374001291 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 59374001292 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 59374001293 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 59374001294 ATP binding site [chemical binding]; other site 59374001295 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 59374001296 active site 59374001297 putative metal-binding site [ion binding]; other site 59374001298 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 59374001299 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 59374001300 FOG: CBS domain [General function prediction only]; Region: COG0517 59374001301 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 59374001302 Transporter associated domain; Region: CorC_HlyC; cl08393 59374001303 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 59374001304 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 59374001305 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 59374001306 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 59374001307 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 59374001308 putative metal binding residues [ion binding]; other site 59374001309 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 59374001310 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 59374001311 active site 59374001312 motif I; other site 59374001313 motif II; other site 59374001314 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 59374001315 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 59374001316 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 59374001317 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 59374001318 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374001319 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 59374001320 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 59374001321 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374001322 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374001323 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374001324 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374001325 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374001326 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374001327 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374001328 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374001329 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374001330 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 59374001331 nucleotide binding site [chemical binding]; other site 59374001332 SulA interaction site; other site 59374001333 cell division protein FtsA; Region: ftsA; TIGR01174 59374001334 Cell division protein FtsA; Region: FtsA; cl11496 59374001335 Cell division protein FtsA; Region: FtsA; cl11496 59374001336 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 59374001337 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 59374001338 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 59374001339 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 59374001340 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 59374001341 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 59374001342 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 59374001343 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 59374001344 active site 59374001345 homodimer interface [polypeptide binding]; other site 59374001346 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 59374001347 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 59374001348 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 59374001349 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 59374001350 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 59374001351 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 59374001352 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 59374001353 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 59374001354 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 59374001355 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 59374001356 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 59374001357 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 59374001358 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 59374001359 cell division protein MraZ; Reviewed; Region: PRK00326 59374001360 MraZ protein; Region: MraZ; pfam02381 59374001361 MraZ protein; Region: MraZ; pfam02381 59374001362 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 59374001363 catalytic residues [active] 59374001364 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 59374001365 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 59374001366 FAD binding site [chemical binding]; other site 59374001367 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 59374001368 ligand binding site [chemical binding]; other site 59374001369 Aminotransferase class-V; Region: Aminotran_5; pfam00266 59374001370 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 59374001371 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 59374001372 catalytic residue [active] 59374001373 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 59374001374 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 59374001375 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 59374001376 putative active site [active] 59374001377 dimerization interface [polypeptide binding]; other site 59374001378 putative tRNAtyr binding site [nucleotide binding]; other site 59374001379 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 59374001380 active site 59374001381 homodimer interface [polypeptide binding]; other site 59374001382 homotetramer interface [polypeptide binding]; other site 59374001383 hypothetical protein, TIGR02147; Region: Fsuc_second 59374001384 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 59374001385 MatE; Region: MatE; cl10513 59374001386 MatE; Region: MatE; cl10513 59374001387 GTP-binding protein YchF; Reviewed; Region: PRK09601 59374001388 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 59374001389 G1 box; other site 59374001390 GTP/Mg2+ binding site [chemical binding]; other site 59374001391 Switch I region; other site 59374001392 G2 box; other site 59374001393 Switch II region; other site 59374001394 G3 box; other site 59374001395 G4 box; other site 59374001396 G5 box; other site 59374001397 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 59374001398 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 59374001399 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 59374001400 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 59374001401 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 59374001402 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 59374001403 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 59374001404 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 59374001405 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 59374001406 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 59374001407 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374001408 Q-loop/lid; other site 59374001409 ABC transporter signature motif; other site 59374001410 Walker B; other site 59374001411 D-loop; other site 59374001412 H-loop/switch region; other site 59374001413 hypothetical protein, TIGR02147; Region: Fsuc_second 59374001414 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 59374001415 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 59374001416 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 59374001417 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 59374001418 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 59374001419 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 59374001420 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 59374001421 Helix-turn-helix domains; Region: HTH; cl00088 59374001422 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 59374001423 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 59374001424 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 59374001425 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 59374001426 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 59374001427 Uncharacterized conserved protein [Function unknown]; Region: COG4832 59374001428 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 59374001429 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 59374001430 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 59374001431 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 59374001432 Walker A motif; other site 59374001433 ATP binding site [chemical binding]; other site 59374001434 Walker B motif; other site 59374001435 arginine finger; other site 59374001436 Helix-turn-helix domains; Region: HTH; cl00088 59374001437 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 59374001438 active site 59374001439 ATP binding site [chemical binding]; other site 59374001440 substrate binding site [chemical binding]; other site 59374001441 activation loop (A-loop); other site 59374001442 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 59374001443 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 59374001444 binding surface 59374001445 TPR motif; other site 59374001446 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 59374001447 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 59374001448 active site 59374001449 8-oxo-dGMP binding site [chemical binding]; other site 59374001450 nudix motif; other site 59374001451 metal binding site [ion binding]; metal-binding site 59374001452 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 59374001453 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 59374001454 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 59374001455 dimerization interface [polypeptide binding]; other site 59374001456 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374001457 metal binding site [ion binding]; metal-binding site 59374001458 active site 59374001459 I-site; other site 59374001460 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 59374001461 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 59374001462 FMN binding site [chemical binding]; other site 59374001463 active site 59374001464 catalytic residues [active] 59374001465 substrate binding site [chemical binding]; other site 59374001466 ornithine carbamoyltransferase; Provisional; Region: PRK00779 59374001467 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 59374001468 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374001469 biotin synthase; Region: bioB; TIGR00433 59374001470 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 59374001471 FeS/SAM binding site; other site 59374001472 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 59374001473 type 2 lantibiotic biosynthesis protein LanM; Region: lanti_2_LanM; TIGR03897 59374001474 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cd04434 59374001475 active site 59374001476 zinc binding site [ion binding]; other site 59374001477 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 59374001478 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 59374001479 dimer interface [polypeptide binding]; other site 59374001480 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374001481 catalytic residue [active] 59374001482 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 59374001483 classical (c) SDRs; Region: SDR_c; cd05233 59374001484 NAD(P) binding site [chemical binding]; other site 59374001485 active site 59374001486 NlpC/P60 family; Region: NLPC_P60; cl11438 59374001487 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 59374001488 Prephenate dehydratase; Region: PDT; pfam00800 59374001489 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 59374001490 putative L-Phe binding site [chemical binding]; other site 59374001491 ribonuclease PH; Reviewed; Region: rph; PRK00173 59374001492 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 59374001493 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 59374001494 hypothetical protein, TIGR02147; Region: Fsuc_second 59374001495 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 59374001496 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 59374001497 putative active site [active] 59374001498 oxyanion strand; other site 59374001499 catalytic triad [active] 59374001500 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 59374001501 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374001502 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 59374001503 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 59374001504 ANP binding site [chemical binding]; other site 59374001505 Substrate Binding Site II [chemical binding]; other site 59374001506 Substrate Binding Site I [chemical binding]; other site 59374001507 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 59374001508 mce related protein; Region: MCE; cl15431 59374001509 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 59374001510 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 59374001511 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 59374001512 generic binding surface II; other site 59374001513 ssDNA binding site; other site 59374001514 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 59374001515 ATP binding site [chemical binding]; other site 59374001516 putative Mg++ binding site [ion binding]; other site 59374001517 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 59374001518 nucleotide binding region [chemical binding]; other site 59374001519 ATP-binding site [chemical binding]; other site 59374001520 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 59374001521 ABC-2 type transporter; Region: ABC2_membrane; cl11417 59374001522 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 59374001523 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374001524 Walker A/P-loop; other site 59374001525 ATP binding site [chemical binding]; other site 59374001526 Q-loop/lid; other site 59374001527 ABC transporter signature motif; other site 59374001528 Walker B; other site 59374001529 D-loop; other site 59374001530 H-loop/switch region; other site 59374001531 ABC transporter; Region: ABC_tran_2; pfam12848 59374001532 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 59374001533 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 59374001534 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 59374001535 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 59374001536 trimer interface [polypeptide binding]; other site 59374001537 active site 59374001538 substrate binding site [chemical binding]; other site 59374001539 CoA binding site [chemical binding]; other site 59374001540 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374001541 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 59374001542 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 59374001543 ATP binding site [chemical binding]; other site 59374001544 ATP binding site [chemical binding]; other site 59374001545 putative Mg++ binding site [ion binding]; other site 59374001546 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 59374001547 nucleotide binding region [chemical binding]; other site 59374001548 ATP-binding site [chemical binding]; other site 59374001549 RQC domain; Region: RQC; cl09632 59374001550 HRDC domain; Region: HRDC; cl02578 59374001551 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 59374001552 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 59374001553 homodimer interface [polypeptide binding]; other site 59374001554 substrate-cofactor binding pocket; other site 59374001555 catalytic residue [active] 59374001556 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 59374001557 Phd_YefM; Region: PhdYeFM; cl09153 59374001558 OpgC protein; Region: OpgC_C; cl00792 59374001559 Acyltransferase family; Region: Acyl_transf_3; pfam01757 59374001560 FIST N domain; Region: FIST; cl10701 59374001561 FIST C domain; Region: FIST_C; pfam10442 59374001562 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374001563 metal binding site [ion binding]; metal-binding site 59374001564 active site 59374001565 I-site; other site 59374001566 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 59374001567 Zn2+ binding site [ion binding]; other site 59374001568 Mg2+ binding site [ion binding]; other site 59374001569 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 59374001570 dimer interface [polypeptide binding]; other site 59374001571 Citrate synthase; Region: Citrate_synt; pfam00285 59374001572 active site 59374001573 citrylCoA binding site [chemical binding]; other site 59374001574 NADH binding [chemical binding]; other site 59374001575 cationic pore residues; other site 59374001576 oxalacetate/citrate binding site [chemical binding]; other site 59374001577 coenzyme A binding site [chemical binding]; other site 59374001578 catalytic triad [active] 59374001579 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 59374001580 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 59374001581 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374001582 homodimer interface [polypeptide binding]; other site 59374001583 catalytic residue [active] 59374001584 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 59374001585 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 59374001586 Zn2+ binding site [ion binding]; other site 59374001587 Mg2+ binding site [ion binding]; other site 59374001588 hypothetical protein, TIGR02147; Region: Fsuc_second 59374001589 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 59374001590 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 59374001591 FMN binding site [chemical binding]; other site 59374001592 active site 59374001593 catalytic residues [active] 59374001594 substrate binding site [chemical binding]; other site 59374001595 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 59374001596 IHF dimer interface [polypeptide binding]; other site 59374001597 IHF - DNA interface [nucleotide binding]; other site 59374001598 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 59374001599 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 59374001600 RNA binding surface [nucleotide binding]; other site 59374001601 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 59374001602 active site 59374001603 uracil binding [chemical binding]; other site 59374001604 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 59374001605 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 59374001606 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 59374001607 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 59374001608 N-acetyl-D-glucosamine binding site [chemical binding]; other site 59374001609 catalytic residue [active] 59374001610 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 59374001611 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 59374001612 IPP transferase; Region: IPPT; cl00403 59374001613 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 59374001614 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 59374001615 active site 59374001616 hydrophilic channel; other site 59374001617 dimerization interface [polypeptide binding]; other site 59374001618 catalytic residues [active] 59374001619 active site lid [active] 59374001620 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 59374001621 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 59374001622 dimerization interface 3.5A [polypeptide binding]; other site 59374001623 active site 59374001624 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374001625 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 59374001626 active site 59374001627 metal binding site [ion binding]; metal-binding site 59374001628 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 59374001629 hypothetical protein, TIGR02147; Region: Fsuc_second 59374001630 Pectic acid lyase; Region: Pec_lyase; pfam09492 59374001631 pectate lyase, PelA/Pel-15E family; Region: pec_lyase; TIGR02474 59374001632 Carbohydrate Binding Module family 35 (CBM35), pectate lyase-like; appended mainly to enzymes that bind mannan (Man), xylan, glucuronic acid (GlcA) and possibly glucans; Region: CBM35_pectate_lyase-like; cd04082 59374001633 Ca binding site [ion binding]; other site 59374001634 ligand binding site [chemical binding]; other site 59374001635 Ca binding site (active) [ion binding]; other site 59374001636 Pectinesterase; Region: Pectinesterase; cl01911 59374001637 Carbohydrate Binding Module family 35 (CBM35), pectate lyase-like; appended mainly to enzymes that bind mannan (Man), xylan, glucuronic acid (GlcA) and possibly glucans; Region: CBM35_pectate_lyase-like; cd04082 59374001638 Ca binding site [ion binding]; other site 59374001639 ligand binding site [chemical binding]; other site 59374001640 Ca binding site (active) [ion binding]; other site 59374001641 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374001642 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374001643 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 59374001644 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 59374001645 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 59374001646 ATP binding site [chemical binding]; other site 59374001647 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 59374001648 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 59374001649 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 59374001650 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 59374001651 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 59374001652 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 59374001653 DNA polymerase III subunit alpha; Reviewed; Region: PRK07373 59374001654 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 59374001655 generic binding surface I; other site 59374001656 generic binding surface II; other site 59374001657 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 59374001658 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 59374001659 Probable Catalytic site; other site 59374001660 metal-binding site 59374001661 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 59374001662 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 59374001663 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 59374001664 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374001665 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 59374001666 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 59374001667 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 59374001668 putative acyl-acceptor binding pocket; other site 59374001669 Predicted integral membrane protein [Function unknown]; Region: COG0392 59374001670 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 59374001671 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 59374001672 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 59374001673 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 59374001674 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 59374001675 S-adenosylmethionine binding site [chemical binding]; other site 59374001676 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 59374001677 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 59374001678 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 59374001679 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 59374001680 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 59374001681 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 59374001682 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 59374001683 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 59374001684 active site 59374001685 HIGH motif; other site 59374001686 nucleotide binding site [chemical binding]; other site 59374001687 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 59374001688 active site 59374001689 KMSKS motif; other site 59374001690 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 59374001691 tRNA binding surface [nucleotide binding]; other site 59374001692 anticodon binding site; other site 59374001693 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 59374001694 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 59374001695 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374001696 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374001697 Protein of unknown function (DUF3769); Region: DUF3769; pfam12600 59374001698 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374001699 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374001700 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374001701 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 59374001702 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 59374001703 active site 59374001704 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 59374001705 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 59374001706 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 59374001707 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 59374001708 active site 59374001709 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 59374001710 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 59374001711 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 59374001712 Probable Catalytic site; other site 59374001713 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 59374001714 MatE; Region: MatE; cl10513 59374001715 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 59374001716 Uncharacterized conserved protein [Function unknown]; Region: COG1543 59374001717 Glycosyl hydrolases family 38 N-terminal domain; Region: Glyco_hydro_38; pfam01074 59374001718 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 59374001719 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 59374001720 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 59374001721 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 59374001722 threonine synthase; Validated; Region: PRK06260 59374001723 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 59374001724 homodimer interface [polypeptide binding]; other site 59374001725 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374001726 catalytic residue [active] 59374001727 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 59374001728 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 59374001729 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 59374001730 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 59374001731 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 59374001732 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 59374001733 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 59374001734 G1 box; other site 59374001735 GTP/Mg2+ binding site [chemical binding]; other site 59374001736 Switch I region; other site 59374001737 G2 box; other site 59374001738 Switch II region; other site 59374001739 G3 box; other site 59374001740 G4 box; other site 59374001741 G5 box; other site 59374001742 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 59374001743 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 59374001744 aldose 1-epimerase superfamily; Region: Aldose_epim; cd01081 59374001745 active site 59374001746 catalytic residues [active] 59374001747 Carbohydrate Binding Module family 35 (CBM35); appended mainly to enzymes that bind alpha-D-galactose (CBM35-Gal), including glycoside hydrolase (GH) families GH31 and GH43; Region: CBM35_galactosidase-like; cd04081 59374001748 Ca binding site [ion binding]; other site 59374001749 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; cl09200 59374001750 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374001751 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 59374001752 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374001753 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 59374001754 putative metal binding site [ion binding]; other site 59374001755 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; cl09200 59374001756 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374001757 Carbohydrate Binding Module 6 (CBM6); appended to several carbohydrate binding enzymes, including several glycoside hydrolase (GH) family 26 mannanase domains; Region: CBM6_mannanase-like; cd04086 59374001758 putative metal binding site [ion binding]; other site 59374001759 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; cl09200 59374001760 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374001761 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 59374001762 Domain of unknown function (DUF3536); Region: DUF3536; pfam12055 59374001763 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 59374001764 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 59374001765 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 59374001766 Predicted transcriptional regulator [Transcription]; Region: COG2378 59374001767 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 59374001768 BON domain; Region: BON; cl02771 59374001769 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 59374001770 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 59374001771 HIGH motif; other site 59374001772 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 59374001773 active site 59374001774 KMSKS motif; other site 59374001775 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 59374001776 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 59374001777 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374001778 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 59374001779 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 59374001780 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 59374001781 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 59374001782 Walker A/P-loop; other site 59374001783 ATP binding site [chemical binding]; other site 59374001784 Q-loop/lid; other site 59374001785 ABC transporter signature motif; other site 59374001786 Walker B; other site 59374001787 D-loop; other site 59374001788 H-loop/switch region; other site 59374001789 Domain of unknown function DUF140; Region: DUF140; cl00510 59374001790 replicative DNA helicase; Region: DnaB; TIGR00665 59374001791 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 59374001792 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 59374001793 Walker A motif; other site 59374001794 ATP binding site [chemical binding]; other site 59374001795 Walker B motif; other site 59374001796 DNA binding loops [nucleotide binding] 59374001797 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 59374001798 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 59374001799 Flavoprotein; Region: Flavoprotein; cl08021 59374001800 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 59374001801 OpgC protein; Region: OpgC_C; cl00792 59374001802 Acyltransferase family; Region: Acyl_transf_3; pfam01757 59374001803 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 59374001804 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 59374001805 RNA binding site [nucleotide binding]; other site 59374001806 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 59374001807 RNA binding site [nucleotide binding]; other site 59374001808 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 59374001809 RNA binding site [nucleotide binding]; other site 59374001810 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 59374001811 RNA binding site [nucleotide binding]; other site 59374001812 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec5; cd05690 59374001813 RNA binding site [nucleotide binding]; other site 59374001814 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 59374001815 RNA binding site [nucleotide binding]; other site 59374001816 cytidylate kinase; Provisional; Region: cmk; PRK00023 59374001817 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 59374001818 CMP-binding site; other site 59374001819 The sites determining sugar specificity; other site 59374001820 TraB family; Region: TraB; cl12050 59374001821 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 59374001822 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374001823 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374001824 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 59374001825 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 59374001826 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374001827 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 59374001828 catalytic residues [active] 59374001829 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 59374001830 Helix-turn-helix domains; Region: HTH; cl00088 59374001831 Protein of unknown function (DUF342); Region: DUF342; pfam03961 59374001832 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 59374001833 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 59374001834 active site 59374001835 HIGH motif; other site 59374001836 nucleotide binding site [chemical binding]; other site 59374001837 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 59374001838 active site 59374001839 KMSKS motif; other site 59374001840 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 59374001841 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 59374001842 putative substrate translocation pore; other site 59374001843 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 59374001844 OpgC protein; Region: OpgC_C; cl00792 59374001845 Acyltransferase family; Region: Acyl_transf_3; pfam01757 59374001846 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 59374001847 excinuclease ABC subunit B; Provisional; Region: PRK05298 59374001848 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 59374001849 ATP binding site [chemical binding]; other site 59374001850 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 59374001851 nucleotide binding region [chemical binding]; other site 59374001852 ATP-binding site [chemical binding]; other site 59374001853 Ultra-violet resistance protein B; Region: UvrB; pfam12344 59374001854 UvrB/uvrC motif; Region: UVR; pfam02151 59374001855 Sulfatase; Region: Sulfatase; cl10460 59374001856 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 59374001857 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 59374001858 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 59374001859 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 59374001860 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 59374001861 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 59374001862 dimer interface [polypeptide binding]; other site 59374001863 motif 1; other site 59374001864 active site 59374001865 motif 2; other site 59374001866 motif 3; other site 59374001867 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 59374001868 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 59374001869 Substrate binding site; other site 59374001870 Cupin domain; Region: Cupin_2; cl09118 59374001871 polysaccharide export protein Wza; Provisional; Region: PRK15078 59374001872 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 59374001873 SLBB domain; Region: SLBB; pfam10531 59374001874 SLBB domain; Region: SLBB; pfam10531 59374001875 Low molecular weight phosphatase family; Region: LMWPc; cd00115 59374001876 active site 59374001877 Cupin domain; Region: Cupin_2; cl09118 59374001878 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 59374001879 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 59374001880 NAD binding site [chemical binding]; other site 59374001881 substrate binding site [chemical binding]; other site 59374001882 homodimer interface [polypeptide binding]; other site 59374001883 active site 59374001884 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 59374001885 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 59374001886 substrate binding site; other site 59374001887 tetramer interface; other site 59374001888 CRISPR-associated helicase Cas3 [Defense mechanisms]; Region: COG1203 59374001889 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 59374001890 ATP binding site [chemical binding]; other site 59374001891 putative Mg++ binding site [ion binding]; other site 59374001892 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374001893 Domain of unknown function (DUF3516); Region: DUF3516; pfam12029 59374001894 Predicted permease; Region: DUF318; cl00487 59374001895 Predicted permease; Region: DUF318; cl00487 59374001896 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 59374001897 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 59374001898 dimerization interface [polypeptide binding]; other site 59374001899 putative DNA binding site [nucleotide binding]; other site 59374001900 putative Zn2+ binding site [ion binding]; other site 59374001901 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 59374001902 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 59374001903 putative substrate binding site [chemical binding]; other site 59374001904 putative ATP binding site [chemical binding]; other site 59374001905 DNA polymerase I; Provisional; Region: PRK05755 59374001906 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 59374001907 active site 59374001908 metal binding site 1 [ion binding]; metal-binding site 59374001909 putative 5' ssDNA interaction site; other site 59374001910 metal binding site 3; metal-binding site 59374001911 metal binding site 2 [ion binding]; metal-binding site 59374001912 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 59374001913 putative DNA binding site [nucleotide binding]; other site 59374001914 putative metal binding site [ion binding]; other site 59374001915 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 59374001916 active site 59374001917 catalytic site [active] 59374001918 substrate binding site [chemical binding]; other site 59374001919 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 59374001920 active site 59374001921 DNA binding site [nucleotide binding] 59374001922 catalytic site [active] 59374001923 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 59374001924 hypothetical protein, TIGR02147; Region: Fsuc_second 59374001925 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 59374001926 Malic enzyme, N-terminal domain; Region: malic; pfam00390 59374001927 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 59374001928 putative NAD(P) binding site [chemical binding]; other site 59374001929 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 59374001930 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 59374001931 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 59374001932 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 59374001933 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 59374001934 23S rRNA binding site [nucleotide binding]; other site 59374001935 L21 binding site [polypeptide binding]; other site 59374001936 L13 binding site [polypeptide binding]; other site 59374001937 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 59374001938 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 59374001939 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 59374001940 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 59374001941 Protein of unknown function (DUF497); Region: DUF497; cl01108 59374001942 transport protein TonB; Provisional; Region: PRK10819 59374001943 Gram-negative bacterial tonB protein; Region: TonB; cl10048 59374001944 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 59374001945 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 59374001946 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 59374001947 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 59374001948 Major Facilitator Superfamily; Region: MFS_1; pfam07690 59374001949 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 59374001950 putative substrate translocation pore; other site 59374001951 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374001952 metal binding site [ion binding]; metal-binding site 59374001953 active site 59374001954 I-site; other site 59374001955 hypothetical protein, TIGR02147; Region: Fsuc_second 59374001956 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 59374001957 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 59374001958 Walker A motif; other site 59374001959 ATP binding site [chemical binding]; other site 59374001960 Walker B motif; other site 59374001961 arginine finger; other site 59374001962 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 59374001963 Walker A motif; other site 59374001964 ATP binding site [chemical binding]; other site 59374001965 Walker B motif; other site 59374001966 arginine finger; other site 59374001967 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374001968 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374001969 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374001970 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374001971 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374001972 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374001973 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374001974 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 59374001975 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 59374001976 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 59374001977 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 59374001978 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 59374001979 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 59374001980 IMP binding site; other site 59374001981 dimer interface [polypeptide binding]; other site 59374001982 interdomain contacts; other site 59374001983 partial ornithine binding site; other site 59374001984 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 59374001985 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 59374001986 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 59374001987 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 59374001988 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 59374001989 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 59374001990 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 59374001991 trimethylamine-N-oxide reductase TorA; Region: torA; TIGR02164 59374001992 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 59374001993 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 59374001994 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 59374001995 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 59374001996 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 59374001997 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 59374001998 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 59374001999 Salmonella virulence plasmid 28.1kDa A protein; Region: VRP1; cl04143 59374002000 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 59374002001 hypothetical protein; Provisional; Region: PRK07208 59374002002 GtrA-like protein; Region: GtrA; cl00971 59374002003 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 59374002004 active site 59374002005 catalytic residues [active] 59374002006 hypothetical protein, TIGR02147; Region: Fsuc_second 59374002007 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 59374002008 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 59374002009 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 59374002010 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 59374002011 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 59374002012 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 59374002013 IMP binding site; other site 59374002014 dimer interface [polypeptide binding]; other site 59374002015 interdomain contacts; other site 59374002016 partial ornithine binding site; other site 59374002017 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 59374002018 IHF - DNA interface [nucleotide binding]; other site 59374002019 IHF dimer interface [polypeptide binding]; other site 59374002020 Domain of unknown function DUF20; Region: UPF0118; cl00465 59374002021 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 59374002022 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 59374002023 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374002024 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374002025 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 59374002026 ligand binding site [chemical binding]; other site 59374002027 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 59374002028 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 59374002029 active site 59374002030 catalytic residues [active] 59374002031 metal binding site [ion binding]; metal-binding site 59374002032 homodimer binding site [polypeptide binding]; other site 59374002033 tetrathionate reductase subunit A; Provisional; Region: PRK14991 59374002034 Histidine kinase; Region: His_kinase; pfam06580 59374002035 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 59374002036 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 59374002037 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 59374002038 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 59374002039 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 59374002040 DNA binding residues [nucleotide binding] 59374002041 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 59374002042 C-terminal peptidase (prc); Region: prc; TIGR00225 59374002043 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 59374002044 protein binding site [polypeptide binding]; other site 59374002045 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 59374002046 Catalytic dyad [active] 59374002047 Domain of unknown function DUF140; Region: DUF140; cl00510 59374002048 Protein of unknown function (DUF721); Region: DUF721; cl02324 59374002049 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 59374002050 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 59374002051 ATP binding site [chemical binding]; other site 59374002052 Mg2+ binding site [ion binding]; other site 59374002053 G-X-G motif; other site 59374002054 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 59374002055 anchoring element; other site 59374002056 dimer interface [polypeptide binding]; other site 59374002057 ATP binding site [chemical binding]; other site 59374002058 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 59374002059 active site 59374002060 putative metal-binding site [ion binding]; other site 59374002061 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 59374002062 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 59374002063 substrate binding pocket [chemical binding]; other site 59374002064 chain length determination region; other site 59374002065 substrate-Mg2+ binding site; other site 59374002066 catalytic residues [active] 59374002067 aspartate-rich region 1; other site 59374002068 active site lid residues [active] 59374002069 aspartate-rich region 2; other site 59374002070 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 59374002071 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 59374002072 Preprotein translocase subunit SecD [Intracellular trafficking and secretion]; Region: SecD; COG0342 59374002073 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 59374002074 Protein export membrane protein; Region: SecD_SecF; cl14618 59374002075 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 59374002076 Protein export membrane protein; Region: SecD_SecF; cl14618 59374002077 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 59374002078 active site 59374002079 homodimer interface [polypeptide binding]; other site 59374002080 catalytic site [active] 59374002081 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 59374002082 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 59374002083 TPR motif; other site 59374002084 binding surface 59374002085 envelope glycoprotein M; Provisional; Region: PHA03239 59374002086 Bacterial SH3 domain; Region: SH3_3; cl02551 59374002087 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 59374002088 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 59374002089 Ligand Binding Site [chemical binding]; other site 59374002090 AIPR protein; Region: AIPR; pfam10592 59374002091 leucine-rich repeat receptor-like protein kinase; Provisional; Region: PLN00113 59374002092 C-terminal peptidase (prc); Region: prc; TIGR00225 59374002093 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 59374002094 protein binding site [polypeptide binding]; other site 59374002095 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 59374002096 Active site serine [active] 59374002097 PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal)...; Region: PDZ_signaling; cd00992 59374002098 protein binding site [polypeptide binding]; other site 59374002099 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 59374002100 Active site serine [active] 59374002101 Peptidase family M23; Region: Peptidase_M23; pfam01551 59374002102 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 59374002103 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 59374002104 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 59374002105 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 59374002106 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 59374002107 glutaminase active site [active] 59374002108 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 59374002109 dimer interface [polypeptide binding]; other site 59374002110 active site 59374002111 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 59374002112 dimer interface [polypeptide binding]; other site 59374002113 active site 59374002114 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 59374002115 DEAD-like helicases superfamily; Region: DEXDc; smart00487 59374002116 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 59374002117 ATP binding site [chemical binding]; other site 59374002118 putative Mg++ binding site [ion binding]; other site 59374002119 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 59374002120 nucleotide binding region [chemical binding]; other site 59374002121 ATP-binding site [chemical binding]; other site 59374002122 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374002123 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374002124 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 59374002125 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374002126 ORF6N domain; Region: ORF6N; pfam10543 59374002127 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 59374002128 putative active site [active] 59374002129 catalytic site [active] 59374002130 ScpA/B protein; Region: ScpA_ScpB; cl00598 59374002131 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 59374002132 Coenzyme A binding pocket [chemical binding]; other site 59374002133 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; cl15691 59374002134 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 59374002135 active site 59374002136 substrate binding site [chemical binding]; other site 59374002137 ATP binding site [chemical binding]; other site 59374002138 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 59374002139 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 59374002140 ABC-2 type transporter; Region: ABC2_membrane; cl11417 59374002141 ABC-2 type transporter; Region: ABC2_membrane; cl11417 59374002142 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 59374002143 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 59374002144 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 59374002145 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 59374002146 putative metal binding residues [ion binding]; other site 59374002147 signature motif; other site 59374002148 dimer interface [polypeptide binding]; other site 59374002149 polyP binding site; other site 59374002150 active site 59374002151 substrate binding site [chemical binding]; other site 59374002152 acceptor-phosphate pocket; other site 59374002153 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 59374002154 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 59374002155 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 59374002156 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 59374002157 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 59374002158 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 59374002159 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374002160 hypothetical protein, TIGR02147; Region: Fsuc_second 59374002161 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 59374002162 putative bifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta; Provisional; Region: PRK12778 59374002163 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 59374002164 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374002165 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 59374002166 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 59374002167 FAD binding pocket [chemical binding]; other site 59374002168 FAD binding motif [chemical binding]; other site 59374002169 phosphate binding motif [ion binding]; other site 59374002170 beta-alpha-beta structure motif; other site 59374002171 NAD binding pocket [chemical binding]; other site 59374002172 Iron coordination center [ion binding]; other site 59374002173 Helix-turn-helix domains; Region: HTH; cl00088 59374002174 Rrf2 family protein; Region: rrf2_super; TIGR00738 59374002175 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 59374002176 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 59374002177 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 59374002178 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 59374002179 binding surface 59374002180 TPR motif; other site 59374002181 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 59374002182 binding surface 59374002183 TPR motif; other site 59374002184 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 59374002185 binding surface 59374002186 TPR motif; other site 59374002187 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 59374002188 Gram-negative bacterial tonB protein; Region: TonB; cl10048 59374002189 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 59374002190 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 59374002191 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 59374002192 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 59374002193 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 59374002194 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 59374002195 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 59374002196 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 59374002197 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 59374002198 DNA binding residues [nucleotide binding] 59374002199 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 59374002200 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 59374002201 additional DNA contacts [nucleotide binding]; other site 59374002202 mismatch recognition site; other site 59374002203 active site 59374002204 zinc binding site [ion binding]; other site 59374002205 DNA intercalation site [nucleotide binding]; other site 59374002206 peptidase T; Region: peptidase-T; TIGR01882 59374002207 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 59374002208 metal binding site [ion binding]; metal-binding site 59374002209 dimer interface [polypeptide binding]; other site 59374002210 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 59374002211 transmembrane helices; other site 59374002212 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 59374002213 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 59374002214 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374002215 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 59374002216 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374002217 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 59374002218 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 59374002219 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 59374002220 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374002221 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 59374002222 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 59374002223 active site 59374002224 8-oxo-dGMP binding site [chemical binding]; other site 59374002225 nudix motif; other site 59374002226 metal binding site [ion binding]; metal-binding site 59374002227 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 59374002228 catalytic residues [active] 59374002229 dimer interface [polypeptide binding]; other site 59374002230 Helix-turn-helix domains; Region: HTH; cl00088 59374002231 Low molecular weight phosphatase family; Region: LMWPc; cd00115 59374002232 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 59374002233 active site 59374002234 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 59374002235 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374002236 putative metal binding site [ion binding]; other site 59374002237 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 59374002238 catalytic residues [active] 59374002239 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 59374002240 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 59374002241 cofactor binding site; other site 59374002242 DNA binding site [nucleotide binding] 59374002243 substrate interaction site [chemical binding]; other site 59374002244 SinI restriction endonuclease; Region: RE_SinI; pfam09570 59374002245 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 59374002246 non-specific DNA binding site [nucleotide binding]; other site 59374002247 salt bridge; other site 59374002248 sequence-specific DNA binding site [nucleotide binding]; other site 59374002249 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 59374002250 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 59374002251 non-specific DNA binding site [nucleotide binding]; other site 59374002252 salt bridge; other site 59374002253 sequence-specific DNA binding site [nucleotide binding]; other site 59374002254 ORF6N domain; Region: ORF6N; pfam10543 59374002255 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 59374002256 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 59374002257 Divergent AAA domain; Region: AAA_4; pfam04326 59374002258 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 59374002259 elongation factor Ts; Provisional; Region: tsf; PRK09377 59374002260 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 59374002261 Elongation factor TS; Region: EF_TS; pfam00889 59374002262 Elongation factor TS; Region: EF_TS; pfam00889 59374002263 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 59374002264 rRNA interaction site [nucleotide binding]; other site 59374002265 S8 interaction site; other site 59374002266 putative laminin-1 binding site; other site 59374002267 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 59374002268 Ligand binding site [chemical binding]; other site 59374002269 Electron transfer flavoprotein domain; Region: ETF; pfam01012 59374002270 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 59374002271 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 59374002272 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 59374002273 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 59374002274 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 59374002275 active site 59374002276 Acyl-CoA dehydrogenase C terminal; Region: AcylCoA_dehyd_C; pfam12186 59374002277 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374002278 Walker A/P-loop; other site 59374002279 ATP binding site [chemical binding]; other site 59374002280 Q-loop/lid; other site 59374002281 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374002282 ABC transporter signature motif; other site 59374002283 Walker B; other site 59374002284 D-loop; other site 59374002285 H-loop/switch region; other site 59374002286 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374002287 Walker A/P-loop; other site 59374002288 ATP binding site [chemical binding]; other site 59374002289 Q-loop/lid; other site 59374002290 ABC transporter signature motif; other site 59374002291 Walker B; other site 59374002292 D-loop; other site 59374002293 H-loop/switch region; other site 59374002294 radical SAM peptide maturase, FibroRumin system; Region: rSAM_FibroRumin; TIGR04136 59374002295 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 59374002296 FeS/SAM binding site; other site 59374002297 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; cl14869 59374002298 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 59374002299 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; cl15691 59374002300 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 59374002301 putative phosphate binding site [ion binding]; other site 59374002302 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 59374002303 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 59374002304 Coenzyme A binding pocket [chemical binding]; other site 59374002305 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 59374002306 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374002307 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 59374002308 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374002309 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 59374002310 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374002311 NAD(P) binding site [chemical binding]; other site 59374002312 active site 59374002313 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 59374002314 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 59374002315 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 59374002316 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 59374002317 MatE; Region: MatE; cl10513 59374002318 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 59374002319 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 59374002320 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 59374002321 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 59374002322 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 59374002323 active site 59374002324 nucleotide binding site [chemical binding]; other site 59374002325 HIGH motif; other site 59374002326 KMSKS motif; other site 59374002327 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 59374002328 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 59374002329 Probable Catalytic site; other site 59374002330 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 59374002331 Probable Catalytic site; other site 59374002332 metal-binding site 59374002333 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 59374002334 Divergent AAA domain; Region: AAA_4; pfam04326 59374002335 Helix-turn-helix domains; Region: HTH; cl00088 59374002336 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 59374002337 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 59374002338 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 59374002339 23S rRNA interface [nucleotide binding]; other site 59374002340 L3 interface [polypeptide binding]; other site 59374002341 Domain of unknown function DUF21; Region: DUF21; pfam01595 59374002342 FOG: CBS domain [General function prediction only]; Region: COG0517 59374002343 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 59374002344 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 59374002345 tandem repeat interface [polypeptide binding]; other site 59374002346 oligomer interface [polypeptide binding]; other site 59374002347 active site residues [active] 59374002348 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 59374002349 tandem repeat interface [polypeptide binding]; other site 59374002350 oligomer interface [polypeptide binding]; other site 59374002351 active site residues [active] 59374002352 Chain length determinant protein; Region: Wzz; cl01623 59374002353 tyrosine kinase; Provisional; Region: PRK11519 59374002354 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374002355 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 59374002356 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374002357 NAD(P) binding site [chemical binding]; other site 59374002358 active site 59374002359 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 59374002360 substrate binding site; other site 59374002361 dimer interface; other site 59374002362 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 59374002363 putative active site [active] 59374002364 catalytic site [active] 59374002365 putative metal binding site [ion binding]; other site 59374002366 oligomer interface [polypeptide binding]; other site 59374002367 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 59374002368 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 59374002369 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 59374002370 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 59374002371 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 59374002372 Probable Catalytic site; other site 59374002373 metal-binding site 59374002374 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 59374002375 MatE; Region: MatE; cl10513 59374002376 LicD family; Region: LicD; cl01378 59374002377 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 59374002378 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 59374002379 active site 59374002380 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374002381 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 59374002382 NAD(P) binding site [chemical binding]; other site 59374002383 active site 59374002384 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 59374002385 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 59374002386 active site 59374002387 metal binding site [ion binding]; metal-binding site 59374002388 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 59374002389 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 59374002390 PYR/PP interface [polypeptide binding]; other site 59374002391 dimer interface [polypeptide binding]; other site 59374002392 TPP binding site [chemical binding]; other site 59374002393 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 59374002394 TPP-binding site; other site 59374002395 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 59374002396 active site 59374002397 nucleotide binding site [chemical binding]; other site 59374002398 HIGH motif; other site 59374002399 KMSKS motif; other site 59374002400 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 59374002401 tetramer interface [polypeptide binding]; other site 59374002402 active site 59374002403 Mg2+/Mn2+ binding site [ion binding]; other site 59374002404 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 59374002405 extended (e) SDRs; Region: SDR_e; cd08946 59374002406 NAD(P) binding site [chemical binding]; other site 59374002407 active site 59374002408 substrate binding site [chemical binding]; other site 59374002409 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 59374002410 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374002411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374002412 probable UDP-glucose 6-dehydrogenase; Region: PLN02353 59374002413 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 59374002414 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374002415 CotH protein; Region: CotH; pfam08757 59374002416 Uncharacterised protein family UPF0546; Region: UPF0546; pfam10639 59374002417 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 59374002418 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 59374002419 binding surface 59374002420 TPR motif; other site 59374002421 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 59374002422 N-acetyl-D-glucosamine binding site [chemical binding]; other site 59374002423 catalytic residue [active] 59374002424 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 59374002425 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 59374002426 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 59374002427 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 59374002428 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 59374002429 dimerization domain swap beta strand [polypeptide binding]; other site 59374002430 regulatory protein interface [polypeptide binding]; other site 59374002431 active site 59374002432 regulatory phosphorylation site [posttranslational modification]; other site 59374002433 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 59374002434 mce related protein; Region: MCE; cl15431 59374002435 RNA polymerase beta' subunit; Region: rpoC1; CHL00018 59374002436 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 59374002437 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 59374002438 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 59374002439 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 59374002440 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 59374002441 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 59374002442 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 59374002443 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 59374002444 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 59374002445 DNA binding site [nucleotide binding] 59374002446 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 59374002447 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 59374002448 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 59374002449 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 59374002450 Aerotolerance regulator N-terminal; Region: BatA; cl06567 59374002451 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 59374002452 metal ion-dependent adhesion site (MIDAS); other site 59374002453 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374002454 metal binding site [ion binding]; metal-binding site 59374002455 active site 59374002456 I-site; other site 59374002457 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 59374002458 metal ion-dependent adhesion site (MIDAS); other site 59374002459 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 59374002460 AzlC protein; Region: AzlC; cl00570 59374002461 YceG-like family; Region: YceG; pfam02618 59374002462 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 59374002463 dimerization interface [polypeptide binding]; other site 59374002464 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 59374002465 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 59374002466 active site 59374002467 nucleophile elbow; other site 59374002468 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 59374002469 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374002470 Walker A motif; other site 59374002471 ATP binding site [chemical binding]; other site 59374002472 Walker B motif; other site 59374002473 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 59374002474 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374002475 Walker A motif; other site 59374002476 ATP binding site [chemical binding]; other site 59374002477 Walker B motif; other site 59374002478 ABC-2 type transporter; Region: ABC2_membrane; cl11417 59374002479 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 59374002480 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 59374002481 Walker A/P-loop; other site 59374002482 ATP binding site [chemical binding]; other site 59374002483 Q-loop/lid; other site 59374002484 ABC transporter signature motif; other site 59374002485 Walker B; other site 59374002486 D-loop; other site 59374002487 H-loop/switch region; other site 59374002488 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374002489 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 59374002490 phosphate binding site [ion binding]; other site 59374002491 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374002492 hypothetical protein, TIGR02147; Region: Fsuc_second 59374002493 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374002494 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374002495 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374002496 hypothetical protein, TIGR02147; Region: Fsuc_second 59374002497 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374002498 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374002499 hypothetical protein, TIGR02147; Region: Fsuc_second 59374002500 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 59374002501 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374002502 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374002503 hypothetical protein, TIGR02147; Region: Fsuc_second 59374002504 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 59374002505 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 59374002506 ATP binding site [chemical binding]; other site 59374002507 Mg++ binding site [ion binding]; other site 59374002508 motif III; other site 59374002509 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 59374002510 nucleotide binding region [chemical binding]; other site 59374002511 ATP-binding site [chemical binding]; other site 59374002512 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374002513 metal binding site [ion binding]; metal-binding site 59374002514 active site 59374002515 I-site; other site 59374002516 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 59374002517 dimer interface [polypeptide binding]; other site 59374002518 conserved gate region; other site 59374002519 ABC-ATPase subunit interface; other site 59374002520 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 59374002521 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 59374002522 Walker A/P-loop; other site 59374002523 ATP binding site [chemical binding]; other site 59374002524 Q-loop/lid; other site 59374002525 ABC transporter signature motif; other site 59374002526 Walker B; other site 59374002527 D-loop; other site 59374002528 H-loop/switch region; other site 59374002529 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 59374002530 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 59374002531 non-specific DNA binding site [nucleotide binding]; other site 59374002532 salt bridge; other site 59374002533 sequence-specific DNA binding site [nucleotide binding]; other site 59374002534 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 59374002535 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 59374002536 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 59374002537 motif 1; other site 59374002538 active site 59374002539 motif 2; other site 59374002540 motif 3; other site 59374002541 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 59374002542 DHHA1 domain; Region: DHHA1; pfam02272 59374002543 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 59374002544 active site 59374002545 catalytic residues [active] 59374002546 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 59374002547 Pyruvate formate lyase 1; Region: PFL1; cd01678 59374002548 coenzyme A binding site [chemical binding]; other site 59374002549 active site 59374002550 catalytic residues [active] 59374002551 glycine loop; other site 59374002552 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 59374002553 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 59374002554 FeS/SAM binding site; other site 59374002555 DEAD-like helicases superfamily; Region: DEXDc; smart00487 59374002556 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 59374002557 ATP binding site [chemical binding]; other site 59374002558 putative Mg++ binding site [ion binding]; other site 59374002559 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 59374002560 nucleotide binding region [chemical binding]; other site 59374002561 ATP-binding site [chemical binding]; other site 59374002562 Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]; Region: HtpG; COG0326 59374002563 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 59374002564 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 59374002565 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 59374002566 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 59374002567 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 59374002568 Walker A motif; other site 59374002569 ATP binding site [chemical binding]; other site 59374002570 Walker B motif; other site 59374002571 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 59374002572 catalytic residues [active] 59374002573 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 59374002574 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 59374002575 motif 1; other site 59374002576 dimer interface [polypeptide binding]; other site 59374002577 active site 59374002578 motif 2; other site 59374002579 motif 3; other site 59374002580 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374002581 Aminotransferase class-V; Region: Aminotran_5; pfam00266 59374002582 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 59374002583 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 59374002584 catalytic residue [active] 59374002585 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 59374002586 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 59374002587 putative ATP binding site [chemical binding]; other site 59374002588 putative substrate interface [chemical binding]; other site 59374002589 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 59374002590 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 59374002591 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 59374002592 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 59374002593 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 59374002594 Walker A motif; other site 59374002595 ATP binding site [chemical binding]; other site 59374002596 Walker B motif; other site 59374002597 arginine finger; other site 59374002598 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 59374002599 Walker A motif; other site 59374002600 ATP binding site [chemical binding]; other site 59374002601 Walker B motif; other site 59374002602 arginine finger; other site 59374002603 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 59374002604 Fic/DOC family; Region: Fic; cl00960 59374002605 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cd00138 59374002606 putative active site [active] 59374002607 catalytic site [active] 59374002608 Predicted transcriptional regulator [Transcription]; Region: COG2378 59374002609 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 59374002610 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 59374002611 homodimer interface [polypeptide binding]; other site 59374002612 substrate-cofactor binding pocket; other site 59374002613 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374002614 catalytic residue [active] 59374002615 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 59374002616 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 59374002617 dimer interface [polypeptide binding]; other site 59374002618 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374002619 catalytic residue [active] 59374002620 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 59374002621 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 59374002622 Ligand Binding Site [chemical binding]; other site 59374002623 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 59374002624 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 59374002625 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 59374002626 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 59374002627 nitrogenase iron protein; Region: nifH; TIGR01287 59374002628 Nucleotide-binding sites [chemical binding]; other site 59374002629 Walker A motif; other site 59374002630 Switch I region of nucleotide binding site; other site 59374002631 Fe4S4 binding sites [ion binding]; other site 59374002632 Switch II region of nucleotide binding site; other site 59374002633 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 59374002634 Radical SAM superfamily; Region: Radical_SAM; pfam04055 59374002635 FeS/SAM binding site; other site 59374002636 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 59374002637 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 59374002638 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 59374002639 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 59374002640 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 59374002641 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 59374002642 homodimer interface [polypeptide binding]; other site 59374002643 substrate-cofactor binding pocket; other site 59374002644 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374002645 catalytic residue [active] 59374002646 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 59374002647 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 59374002648 dimer interface [polypeptide binding]; other site 59374002649 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374002650 catalytic residue [active] 59374002651 Leucine carboxyl methyltransferase; Region: LCM; cl01306 59374002652 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 59374002653 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 59374002654 ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG4525 59374002655 Walker A/P-loop; other site 59374002656 ATP binding site [chemical binding]; other site 59374002657 Q-loop/lid; other site 59374002658 ABC transporter signature motif; other site 59374002659 Walker B; other site 59374002660 D-loop; other site 59374002661 H-loop/switch region; other site 59374002662 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 59374002663 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; cl15306 59374002664 substrate binding pocket [chemical binding]; other site 59374002665 membrane-bound complex binding site; other site 59374002666 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 59374002667 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 59374002668 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 59374002669 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 59374002670 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 59374002671 nitrogenase iron protein; Region: nifH; TIGR01287 59374002672 Nucleotide-binding sites [chemical binding]; other site 59374002673 Walker A motif; other site 59374002674 Switch I region of nucleotide binding site; other site 59374002675 Fe4S4 binding sites [ion binding]; other site 59374002676 Switch II region of nucleotide binding site; other site 59374002677 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 59374002678 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 59374002679 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 59374002680 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 59374002681 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 59374002682 dimer interface [polypeptide binding]; other site 59374002683 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374002684 catalytic residue [active] 59374002685 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 59374002686 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 59374002687 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 59374002688 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 59374002689 dimer interface [polypeptide binding]; other site 59374002690 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374002691 catalytic residue [active] 59374002692 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 59374002693 dimer interface [polypeptide binding]; other site 59374002694 conserved gate region; other site 59374002695 putative PBP binding loops; other site 59374002696 ABC-ATPase subunit interface; other site 59374002697 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 59374002698 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 59374002699 Walker A/P-loop; other site 59374002700 ATP binding site [chemical binding]; other site 59374002701 Q-loop/lid; other site 59374002702 ABC transporter signature motif; other site 59374002703 Walker B; other site 59374002704 D-loop; other site 59374002705 H-loop/switch region; other site 59374002706 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 59374002707 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 59374002708 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374002709 homodimer interface [polypeptide binding]; other site 59374002710 catalytic residue [active] 59374002711 Transcriptional regulator [Transcription]; Region: LysR; COG0583 59374002712 Helix-turn-helix domains; Region: HTH; cl00088 59374002713 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 59374002714 dimerization interface [polypeptide binding]; other site 59374002715 FtsX-like permease family; Region: FtsX; pfam02687 59374002716 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 59374002717 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 59374002718 Walker A/P-loop; other site 59374002719 ATP binding site [chemical binding]; other site 59374002720 Q-loop/lid; other site 59374002721 ABC transporter signature motif; other site 59374002722 Walker B; other site 59374002723 D-loop; other site 59374002724 H-loop/switch region; other site 59374002725 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 59374002726 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 59374002727 S-adenosylmethionine binding site [chemical binding]; other site 59374002728 Fic family protein [Function unknown]; Region: COG3177 59374002729 Fic/DOC family; Region: Fic; cl00960 59374002730 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 59374002731 Divergent AAA domain; Region: AAA_4; pfam04326 59374002732 Helix-turn-helix domains; Region: HTH; cl00088 59374002733 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 59374002734 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 59374002735 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 59374002736 putative acyl-acceptor binding pocket; other site 59374002737 RNB domain; Region: RNB; pfam00773 59374002738 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 59374002739 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 59374002740 RNA binding site [nucleotide binding]; other site 59374002741 Rhamnan synthesis protein F; Region: RgpF; cl01529 59374002742 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 59374002743 catalytic core [active] 59374002744 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 59374002745 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 59374002746 S-adenosylmethionine binding site [chemical binding]; other site 59374002747 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 59374002748 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374002749 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 59374002750 hypothetical protein; Provisional; Region: PRK00955 59374002751 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 59374002752 Sodium:solute symporter family; Region: SSF; cl00456 59374002753 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 59374002754 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 59374002755 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 59374002756 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 59374002757 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 59374002758 Walker A motif; other site 59374002759 ATP binding site [chemical binding]; other site 59374002760 Walker B motif; other site 59374002761 arginine finger; other site 59374002762 Helix-turn-helix domains; Region: HTH; cl00088 59374002763 EamA-like transporter family; Region: EamA; cl01037 59374002764 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 59374002765 EamA-like transporter family; Region: EamA; cl01037 59374002766 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 59374002767 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 59374002768 homodimer interface [polypeptide binding]; other site 59374002769 substrate-cofactor binding pocket; other site 59374002770 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374002771 catalytic residue [active] 59374002772 Membrane transport protein; Region: Mem_trans; cl09117 59374002773 putative transporter; Validated; Region: PRK03818 59374002774 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 59374002775 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 59374002776 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 59374002777 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 59374002778 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 59374002779 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 59374002780 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 59374002781 DNA binding residues [nucleotide binding] 59374002782 putative dimer interface [polypeptide binding]; other site 59374002783 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 59374002784 nudix motif; other site 59374002785 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 59374002786 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 59374002787 active site 59374002788 nucleophile elbow; other site 59374002789 hypothetical protein, TIGR02147; Region: Fsuc_second 59374002790 Nickel uptake substrate-specific transmembrane region; Region: NikM; pfam10670 59374002791 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 59374002792 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 59374002793 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 59374002794 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 59374002795 ATP phosphoribosyltransferase; Region: HisG; cl15266 59374002796 HisG, C-terminal domain; Region: HisG_C; cl06867 59374002797 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 59374002798 HDOD domain; Region: HDOD; pfam08668 59374002799 recombination protein RecR; Reviewed; Region: recR; PRK00076 59374002800 RecR protein; Region: RecR; pfam02132 59374002801 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 59374002802 putative active site [active] 59374002803 putative metal-binding site [ion binding]; other site 59374002804 tetramer interface [polypeptide binding]; other site 59374002805 Predicted GTPase [General function prediction only]; Region: COG0218 59374002806 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 59374002807 G1 box; other site 59374002808 GTP/Mg2+ binding site [chemical binding]; other site 59374002809 Switch I region; other site 59374002810 G2 box; other site 59374002811 G3 box; other site 59374002812 Switch II region; other site 59374002813 G4 box; other site 59374002814 G5 box; other site 59374002815 Domain of unknown function DUF140; Region: DUF140; cl00510 59374002816 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 59374002817 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374002818 Walker A/P-loop; other site 59374002819 ATP binding site [chemical binding]; other site 59374002820 Q-loop/lid; other site 59374002821 ABC transporter signature motif; other site 59374002822 Walker B; other site 59374002823 D-loop; other site 59374002824 H-loop/switch region; other site 59374002825 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 59374002826 active site 59374002827 substrate binding pocket [chemical binding]; other site 59374002828 dimer interface [polypeptide binding]; other site 59374002829 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 59374002830 ligand binding site [chemical binding]; other site 59374002831 TIGR02452 family protein; Region: TIGR02452 59374002832 Uncharacterized protein conserved in bacteria (DUF2263); Region: DUF2263; pfam10021 59374002833 Macro domain, 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 polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 59374002834 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374002835 Walker A motif; other site 59374002836 ATP binding site [chemical binding]; other site 59374002837 Walker B motif; other site 59374002838 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 59374002839 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 59374002840 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 59374002841 Walker A motif; other site 59374002842 ATP binding site [chemical binding]; other site 59374002843 Walker B motif; other site 59374002844 arginine finger; other site 59374002845 Predicted transcriptional regulator [Transcription]; Region: COG2378 59374002846 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 59374002847 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 59374002848 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 59374002849 HIGH motif; other site 59374002850 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 59374002851 active site 59374002852 KMSKS motif; other site 59374002853 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 59374002854 tRNA binding surface [nucleotide binding]; other site 59374002855 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 59374002856 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]; Region: COG4262 59374002857 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 59374002858 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 59374002859 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 59374002860 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 59374002861 substrate binding pocket [chemical binding]; other site 59374002862 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 59374002863 B12 binding site [chemical binding]; other site 59374002864 cobalt ligand [ion binding]; other site 59374002865 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 59374002866 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 59374002867 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 59374002868 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 59374002869 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 59374002870 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 59374002871 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 59374002872 dimer interface [polypeptide binding]; other site 59374002873 DNA polymerase IV; Reviewed; Region: PRK03103 59374002874 Y-family of DNA polymerases; Region: PolY; cl12025 59374002875 active site 59374002876 DNA binding site [nucleotide binding] 59374002877 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 59374002878 GAF domain; Region: GAF; cl00853 59374002879 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374002880 metal binding site [ion binding]; metal-binding site 59374002881 active site 59374002882 I-site; other site 59374002883 exonuclease SbcC; Region: sbcc; TIGR00618 59374002884 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374002885 Walker A/P-loop; other site 59374002886 ATP binding site [chemical binding]; other site 59374002887 Q-loop/lid; other site 59374002888 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374002889 ABC transporter signature motif; other site 59374002890 Walker B; other site 59374002891 D-loop; other site 59374002892 H-loop/switch region; other site 59374002893 exonuclease subunit SbcD; Provisional; Region: PRK10966 59374002894 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 59374002895 active site 59374002896 metal binding site [ion binding]; metal-binding site 59374002897 DNA binding site [nucleotide binding] 59374002898 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 59374002899 dimer interface [polypeptide binding]; other site 59374002900 phosphorylation site [posttranslational modification] 59374002901 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 59374002902 ATP binding site [chemical binding]; other site 59374002903 Mg2+ binding site [ion binding]; other site 59374002904 G-X-G motif; other site 59374002905 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 59374002906 Response regulator receiver domain; Region: Response_reg; pfam00072 59374002907 active site 59374002908 phosphorylation site [posttranslational modification] 59374002909 intermolecular recognition site; other site 59374002910 dimerization interface [polypeptide binding]; other site 59374002911 Response regulator receiver domain; Region: Response_reg; pfam00072 59374002912 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 59374002913 active site 59374002914 phosphorylation site [posttranslational modification] 59374002915 intermolecular recognition site; other site 59374002916 dimerization interface [polypeptide binding]; other site 59374002917 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; cl15476 59374002918 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; cl15476 59374002919 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 59374002920 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374002921 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374002922 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 59374002923 Competence protein CoiA-like family; Region: CoiA; cl11541 59374002924 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 59374002925 Divergent AAA domain; Region: AAA_4; pfam04326 59374002926 Helix-turn-helix domains; Region: HTH; cl00088 59374002927 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 59374002928 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 59374002929 putative dimer interface [polypeptide binding]; other site 59374002930 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 59374002931 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374002932 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 59374002933 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 59374002934 putative DNA binding helix; other site 59374002935 metal binding site 2 [ion binding]; metal-binding site 59374002936 metal binding site 1 [ion binding]; metal-binding site 59374002937 dimer interface [polypeptide binding]; other site 59374002938 structural Zn2+ binding site [ion binding]; other site 59374002939 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 59374002940 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 59374002941 intersubunit interface [polypeptide binding]; other site 59374002942 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 59374002943 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 59374002944 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 59374002945 ABC-ATPase subunit interface; other site 59374002946 dimer interface [polypeptide binding]; other site 59374002947 putative PBP binding regions; other site 59374002948 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 59374002949 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 59374002950 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 59374002951 metal ion-dependent adhesion site (MIDAS); other site 59374002952 elongation factor G; Reviewed; Region: PRK13351 59374002953 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374002954 G1 box; other site 59374002955 GTP/Mg2+ binding site [chemical binding]; other site 59374002956 G2 box; other site 59374002957 Switch I region; other site 59374002958 G3 box; other site 59374002959 Switch II region; other site 59374002960 G4 box; other site 59374002961 G5 box; other site 59374002962 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 59374002963 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 59374002964 synthetase active site [active] 59374002965 NTP binding site [chemical binding]; other site 59374002966 metal binding site [ion binding]; metal-binding site 59374002967 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 59374002968 Protein of unknown function (DUF541); Region: SIMPL; cl01077 59374002969 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 59374002970 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 59374002971 active site 59374002972 dimer interface [polypeptide binding]; other site 59374002973 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 59374002974 dimer interface [polypeptide binding]; other site 59374002975 active site 59374002976 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374002977 metal binding site [ion binding]; metal-binding site 59374002978 active site 59374002979 I-site; other site 59374002980 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 59374002981 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 59374002982 catalytic core [active] 59374002983 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 59374002984 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 59374002985 MoxR-like ATPases [General function prediction only]; Region: COG0714 59374002986 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 59374002987 Walker A motif; other site 59374002988 ATP binding site [chemical binding]; other site 59374002989 Walker B motif; other site 59374002990 arginine finger; other site 59374002991 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374002992 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 59374002993 TfoX N-terminal domain; Region: TfoX_N; cl01167 59374002994 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 59374002995 Domain of unknown function (DUF373); Region: DUF373; cl12079 59374002996 OpgC protein; Region: OpgC_C; cl00792 59374002997 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 59374002998 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; cl15292 59374002999 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374003000 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374003001 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374003002 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 59374003003 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374003004 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 59374003005 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 59374003006 Walker A/P-loop; other site 59374003007 ATP binding site [chemical binding]; other site 59374003008 Q-loop/lid; other site 59374003009 ABC transporter signature motif; other site 59374003010 Walker B; other site 59374003011 D-loop; other site 59374003012 H-loop/switch region; other site 59374003013 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 59374003014 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 59374003015 Walker A/P-loop; other site 59374003016 ATP binding site [chemical binding]; other site 59374003017 Q-loop/lid; other site 59374003018 ABC transporter signature motif; other site 59374003019 Walker B; other site 59374003020 D-loop; other site 59374003021 H-loop/switch region; other site 59374003022 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 59374003023 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 59374003024 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 59374003025 dimer interface [polypeptide binding]; other site 59374003026 conserved gate region; other site 59374003027 putative PBP binding loops; other site 59374003028 ABC-ATPase subunit interface; other site 59374003029 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 59374003030 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 59374003031 dimer interface [polypeptide binding]; other site 59374003032 conserved gate region; other site 59374003033 putative PBP binding loops; other site 59374003034 ABC-ATPase subunit interface; other site 59374003035 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 59374003036 The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold; Region: PBP2_TmCBP_oligosaccharides_like; cd08509 59374003037 substrate binding site [chemical binding]; other site 59374003038 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 59374003039 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 59374003040 GIY-YIG motif/motif A; other site 59374003041 active site 59374003042 catalytic site [active] 59374003043 putative DNA binding site [nucleotide binding]; other site 59374003044 metal binding site [ion binding]; metal-binding site 59374003045 UvrB/uvrC motif; Region: UVR; pfam02151 59374003046 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 59374003047 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 59374003048 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 59374003049 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 59374003050 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 59374003051 mce related protein; Region: MCE; cl15431 59374003052 HPr kinase/phosphorylase; Provisional; Region: PRK05428 59374003053 DRTGG domain; Region: DRTGG; cl12147 59374003054 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 59374003055 Hpr binding site; other site 59374003056 active site 59374003057 homohexamer subunit interaction site [polypeptide binding]; other site 59374003058 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 59374003059 30S subunit binding site; other site 59374003060 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 59374003061 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 59374003062 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 59374003063 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 59374003064 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 59374003065 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 59374003066 Walker A/P-loop; other site 59374003067 ATP binding site [chemical binding]; other site 59374003068 Q-loop/lid; other site 59374003069 ABC transporter signature motif; other site 59374003070 Walker B; other site 59374003071 D-loop; other site 59374003072 H-loop/switch region; other site 59374003073 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 59374003074 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 59374003075 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 59374003076 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 59374003077 dimer interface [polypeptide binding]; other site 59374003078 PYR/PP interface [polypeptide binding]; other site 59374003079 TPP binding site [chemical binding]; other site 59374003080 substrate binding site [chemical binding]; other site 59374003081 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 59374003082 TPP-binding site; other site 59374003083 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 59374003084 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 59374003085 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 59374003086 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 59374003087 Transglycosylase; Region: Transgly; cl07896 59374003088 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 59374003089 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 59374003090 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 59374003091 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 59374003092 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 59374003093 GIY-YIG motif/motif A; other site 59374003094 putative active site [active] 59374003095 putative metal binding site [ion binding]; other site 59374003096 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 59374003097 PAS domain S-box; Region: sensory_box; TIGR00229 59374003098 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 59374003099 dimer interface [polypeptide binding]; other site 59374003100 phosphorylation site [posttranslational modification] 59374003101 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 59374003102 ATP binding site [chemical binding]; other site 59374003103 Mg2+ binding site [ion binding]; other site 59374003104 G-X-G motif; other site 59374003105 Response regulator receiver domain; Region: Response_reg; pfam00072 59374003106 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 59374003107 active site 59374003108 phosphorylation site [posttranslational modification] 59374003109 intermolecular recognition site; other site 59374003110 dimerization interface [polypeptide binding]; other site 59374003111 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 59374003112 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 59374003113 enolase; Provisional; Region: eno; PRK00077 59374003114 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 59374003115 dimer interface [polypeptide binding]; other site 59374003116 metal binding site [ion binding]; metal-binding site 59374003117 substrate binding pocket [chemical binding]; other site 59374003118 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 59374003119 DNA-binding site [nucleotide binding]; DNA binding site 59374003120 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 59374003121 DNA-binding site [nucleotide binding]; DNA binding site 59374003122 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 59374003123 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; cl09200 59374003124 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 59374003125 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 59374003126 S17 interaction site [polypeptide binding]; other site 59374003127 S8 interaction site; other site 59374003128 16S rRNA interaction site [nucleotide binding]; other site 59374003129 streptomycin interaction site [chemical binding]; other site 59374003130 23S rRNA interaction site [nucleotide binding]; other site 59374003131 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 59374003132 DNA-directed RNA polymerase, gamma subunit; Region: rpoC1_cyan; TIGR02387 59374003133 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 59374003134 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 59374003135 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 59374003136 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 59374003137 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 59374003138 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 59374003139 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 59374003140 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 59374003141 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 59374003142 DNA binding site [nucleotide binding] 59374003143 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 59374003144 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 59374003145 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 59374003146 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 59374003147 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 59374003148 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 59374003149 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 59374003150 RPB11 interaction site [polypeptide binding]; other site 59374003151 RPB12 interaction site [polypeptide binding]; other site 59374003152 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 59374003153 RPB3 interaction site [polypeptide binding]; other site 59374003154 RPB1 interaction site [polypeptide binding]; other site 59374003155 RPB11 interaction site [polypeptide binding]; other site 59374003156 RPB10 interaction site [polypeptide binding]; other site 59374003157 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 59374003158 core dimer interface [polypeptide binding]; other site 59374003159 peripheral dimer interface [polypeptide binding]; other site 59374003160 L10 interface [polypeptide binding]; other site 59374003161 L11 interface [polypeptide binding]; other site 59374003162 putative EF-Tu interaction site [polypeptide binding]; other site 59374003163 putative EF-G interaction site [polypeptide binding]; other site 59374003164 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 59374003165 23S rRNA interface [nucleotide binding]; other site 59374003166 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 59374003167 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 59374003168 mRNA/rRNA interface [nucleotide binding]; other site 59374003169 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 59374003170 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 59374003171 23S rRNA interface [nucleotide binding]; other site 59374003172 L7/L12 interface [polypeptide binding]; other site 59374003173 putative thiostrepton binding site; other site 59374003174 L25 interface [polypeptide binding]; other site 59374003175 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 59374003176 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 59374003177 putative homodimer interface [polypeptide binding]; other site 59374003178 KOW motif; Region: KOW; cl00354 59374003179 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 59374003180 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 59374003181 elongation factor Tu; Reviewed; Region: PRK00049 59374003182 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 59374003183 G1 box; other site 59374003184 GEF interaction site [polypeptide binding]; other site 59374003185 GTP/Mg2+ binding site [chemical binding]; other site 59374003186 Switch I region; other site 59374003187 G2 box; other site 59374003188 G3 box; other site 59374003189 Switch II region; other site 59374003190 G4 box; other site 59374003191 G5 box; other site 59374003192 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 59374003193 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 59374003194 Antibiotic Binding Site [chemical binding]; other site 59374003195 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 59374003196 active site 59374003197 recombination factor protein RarA; Reviewed; Region: PRK13342 59374003198 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 59374003199 Walker A motif; other site 59374003200 ATP binding site [chemical binding]; other site 59374003201 Walker B motif; other site 59374003202 arginine finger; other site 59374003203 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 59374003204 hypothetical protein, TIGR02147; Region: Fsuc_second 59374003205 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003206 Adenosylhomocysteinase; Provisional; Region: PTZ00075 59374003207 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 59374003208 oligomerization interface [polypeptide binding]; other site 59374003209 active site 59374003210 NAD+ binding site [chemical binding]; other site 59374003211 Virulence protein [General function prediction only]; Region: COG3943 59374003212 Restriction endonuclease [Defense mechanisms]; Region: COG3587 59374003213 Protein of unknown function (DUF3791); Region: DUF3791; pfam12668 59374003214 Protein of unknown function DUF262; Region: DUF262; cl14890 59374003215 Protein of unknown function DUF262; Region: DUF262; cl14890 59374003216 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 59374003217 Helix-turn-helix domains; Region: HTH; cl00088 59374003218 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 59374003219 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Provisional; Region: PRK02048 59374003220 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 59374003221 putative active site [active] 59374003222 putative NTP binding site [chemical binding]; other site 59374003223 putative nucleic acid binding site [nucleotide binding]; other site 59374003224 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 59374003225 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 59374003226 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 59374003227 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 59374003228 Walker A motif; other site 59374003229 ATP binding site [chemical binding]; other site 59374003230 Walker B motif; other site 59374003231 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 59374003232 homodimer interface [polypeptide binding]; other site 59374003233 putative active site [active] 59374003234 catalytic site [active] 59374003235 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 59374003236 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 59374003237 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_c; cd10311 59374003238 putative active site [active] 59374003239 catalytic site [active] 59374003240 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 59374003241 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 59374003242 ATP binding site [chemical binding]; other site 59374003243 putative Mg++ binding site [ion binding]; other site 59374003244 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 59374003245 nucleotide binding region [chemical binding]; other site 59374003246 ATP-binding site [chemical binding]; other site 59374003247 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 59374003248 active site 59374003249 catalytic triad [active] 59374003250 oxyanion hole [active] 59374003251 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 59374003252 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 59374003253 active site 59374003254 catalytic triad [active] 59374003255 oxyanion hole [active] 59374003256 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374003257 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 59374003258 active site 59374003259 catalytic triad [active] 59374003260 oxyanion hole [active] 59374003261 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374003262 Predicted ATPase of the ABC class; Region: ABC_ATPase; pfam09818 59374003263 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 59374003264 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 59374003265 TolB amino-terminal domain; Region: TolB_N; cl00639 59374003266 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 59374003267 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 59374003268 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 59374003269 active site 59374003270 phosphorylation site [posttranslational modification] 59374003271 intermolecular recognition site; other site 59374003272 dimerization interface [polypeptide binding]; other site 59374003273 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 59374003274 DNA binding site [nucleotide binding] 59374003275 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 59374003276 dimer interface [polypeptide binding]; other site 59374003277 phosphorylation site [posttranslational modification] 59374003278 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 59374003279 ATP binding site [chemical binding]; other site 59374003280 Mg2+ binding site [ion binding]; other site 59374003281 G-X-G motif; other site 59374003282 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 59374003283 6-phosphofructokinase; Provisional; Region: PRK03202 59374003284 active site 59374003285 ADP/pyrophosphate binding site [chemical binding]; other site 59374003286 dimerization interface [polypeptide binding]; other site 59374003287 allosteric effector site; other site 59374003288 fructose-1,6-bisphosphate binding site; other site 59374003289 phosphate acetyltransferase; Reviewed; Region: PRK05632 59374003290 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 59374003291 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 59374003292 PA14 domain; Region: PA14; cl08459 59374003293 PA14 domain; Region: PA14; cl08459 59374003294 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 59374003295 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 59374003296 homodimer interface [polypeptide binding]; other site 59374003297 oligonucleotide binding site [chemical binding]; other site 59374003298 Peptidase family M23; Region: Peptidase_M23; pfam01551 59374003299 DNA polymerase III subunit beta; Validated; Region: PRK05643 59374003300 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 59374003301 putative DNA binding surface [nucleotide binding]; other site 59374003302 dimer interface [polypeptide binding]; other site 59374003303 beta-clamp/clamp loader binding surface; other site 59374003304 beta-clamp/translesion DNA polymerase binding surface; other site 59374003305 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 59374003306 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 59374003307 Ligand Binding Site [chemical binding]; other site 59374003308 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003309 Protein of unknown function (DUF1016); Region: DUF1016; cl01979 59374003310 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 59374003311 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 59374003312 HsdM N-terminal domain; Region: HsdM_N; pfam12161 59374003313 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 59374003314 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 59374003315 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 59374003316 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 59374003317 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 59374003318 ATP binding site [chemical binding]; other site 59374003319 putative Mg++ binding site [ion binding]; other site 59374003320 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 59374003321 Virulence protein [General function prediction only]; Region: COG3943 59374003322 Protein of unknown function (DUF3532); Region: DUF3532; pfam12050 59374003323 Transcriptional regulator [Transcription]; Region: LysR; COG0583 59374003324 Helix-turn-helix domains; Region: HTH; cl00088 59374003325 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 59374003326 dimerization interface [polypeptide binding]; other site 59374003327 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 59374003328 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 59374003329 THF binding site; other site 59374003330 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 59374003331 substrate binding site [chemical binding]; other site 59374003332 THF binding site; other site 59374003333 zinc-binding site [ion binding]; other site 59374003334 Sodium:solute symporter family; Region: SSF; cl00456 59374003335 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 59374003336 dimer interface [polypeptide binding]; other site 59374003337 pyridoxal binding site [chemical binding]; other site 59374003338 ATP binding site [chemical binding]; other site 59374003339 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; cl15367 59374003340 Radical SAM superfamily; Region: Radical_SAM; pfam04055 59374003341 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 59374003342 metal ion-dependent adhesion site (MIDAS); other site 59374003343 Macro domain, 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 polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 59374003344 ADP-ribose binding site [chemical binding]; other site 59374003345 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374003346 Domain of unknown function (DUF1768); Region: DUF1768; cl01271 59374003347 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374003348 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374003349 LlaJI restriction endonuclease; Region: RE_LlaJI; pfam09563 59374003350 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional; Region: PRK11331 59374003351 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 59374003352 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374003353 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374003354 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374003355 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374003356 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374003357 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374003358 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374003359 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374003360 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 59374003361 Rubredoxin; Region: Rubredoxin; pfam00301 59374003362 iron binding site [ion binding]; other site 59374003363 Carbon starvation protein CstA; Region: CstA; cl00856 59374003364 aspartate kinase; Reviewed; Region: PRK09034 59374003365 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 59374003366 nucleotide binding site [chemical binding]; other site 59374003367 substrate binding site [chemical binding]; other site 59374003368 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 59374003369 allosteric regulatory residue; other site 59374003370 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 59374003371 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 59374003372 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 59374003373 Walker A motif; other site 59374003374 ATP binding site [chemical binding]; other site 59374003375 Walker B motif; other site 59374003376 arginine finger; other site 59374003377 Helix-turn-helix domains; Region: HTH; cl00088 59374003378 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 59374003379 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 59374003380 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 59374003381 active site 59374003382 substrate binding site [chemical binding]; other site 59374003383 metal binding site [ion binding]; metal-binding site 59374003384 HipA-like N-terminal domain; Region: HipA_N; pfam07805 59374003385 HipA-like C-terminal domain; Region: HipA_C; pfam07804 59374003386 HipA N-terminal domain; Region: couple_hipA; TIGR03071 59374003387 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 59374003388 non-specific DNA binding site [nucleotide binding]; other site 59374003389 salt bridge; other site 59374003390 sequence-specific DNA binding site [nucleotide binding]; other site 59374003391 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 59374003392 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 59374003393 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 59374003394 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 59374003395 catalytic residue [active] 59374003396 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 59374003397 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 59374003398 Walker A motif; other site 59374003399 ATP binding site [chemical binding]; other site 59374003400 Walker B motif; other site 59374003401 arginine finger; other site 59374003402 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 59374003403 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 59374003404 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 59374003405 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 59374003406 Walker A motif; other site 59374003407 ATP binding site [chemical binding]; other site 59374003408 Walker B motif; other site 59374003409 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 59374003410 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 59374003411 oligomer interface [polypeptide binding]; other site 59374003412 active site residues [active] 59374003413 trigger factor; Region: tig; TIGR00115 59374003414 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 59374003415 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 59374003416 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 59374003417 threonyl-tRNA synthetase; Reviewed; Region: PRK12444 59374003418 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 59374003419 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 59374003420 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 59374003421 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 59374003422 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 59374003423 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 59374003424 alphaNTD homodimer interface [polypeptide binding]; other site 59374003425 alphaNTD - beta interaction site [polypeptide binding]; other site 59374003426 alphaNTD - beta' interaction site [polypeptide binding]; other site 59374003427 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 59374003428 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 59374003429 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 59374003430 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 59374003431 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 59374003432 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 59374003433 rRNA binding site [nucleotide binding]; other site 59374003434 predicted 30S ribosome binding site; other site 59374003435 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 59374003436 SecY translocase; Region: SecY; pfam00344 59374003437 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 59374003438 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 59374003439 23S rRNA binding site [nucleotide binding]; other site 59374003440 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 59374003441 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 59374003442 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 59374003443 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 59374003444 5S rRNA interface [nucleotide binding]; other site 59374003445 L27 interface [polypeptide binding]; other site 59374003446 23S rRNA interface [nucleotide binding]; other site 59374003447 L5 interface [polypeptide binding]; other site 59374003448 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 59374003449 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 59374003450 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 59374003451 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 59374003452 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 59374003453 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 59374003454 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 59374003455 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 59374003456 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 59374003457 KOW motif; Region: KOW; cl00354 59374003458 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 59374003459 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 59374003460 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 59374003461 23S rRNA interface [nucleotide binding]; other site 59374003462 putative translocon interaction site; other site 59374003463 signal recognition particle (SRP54) interaction site; other site 59374003464 L23 interface [polypeptide binding]; other site 59374003465 trigger factor interaction site; other site 59374003466 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 59374003467 23S rRNA interface [nucleotide binding]; other site 59374003468 5S rRNA interface [nucleotide binding]; other site 59374003469 putative antibiotic binding site [chemical binding]; other site 59374003470 L25 interface [polypeptide binding]; other site 59374003471 L27 interface [polypeptide binding]; other site 59374003472 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 59374003473 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 59374003474 G-X-X-G motif; other site 59374003475 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 59374003476 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 59374003477 putative translocon binding site; other site 59374003478 protein-rRNA interface [nucleotide binding]; other site 59374003479 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 59374003480 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 59374003481 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 59374003482 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 59374003483 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 59374003484 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 59374003485 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 59374003486 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 59374003487 elongation factor Tu; Reviewed; Region: PRK00049 59374003488 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 59374003489 G1 box; other site 59374003490 GEF interaction site [polypeptide binding]; other site 59374003491 GTP/Mg2+ binding site [chemical binding]; other site 59374003492 Switch I region; other site 59374003493 G2 box; other site 59374003494 G3 box; other site 59374003495 Switch II region; other site 59374003496 G4 box; other site 59374003497 G5 box; other site 59374003498 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 59374003499 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 59374003500 Antibiotic Binding Site [chemical binding]; other site 59374003501 Glycosyl hydrolase family 45; Region: Glyco_hydro_45; pfam02015 59374003502 Glycosyl hydrolase family 45; Region: Glyco_hydro_45; pfam02015 59374003503 Helix-turn-helix domains; Region: HTH; cl00088 59374003504 Peptidase family M48; Region: Peptidase_M48; cl12018 59374003505 LemA family; Region: LemA; cl00742 59374003506 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003507 Peptidase family M48; Region: Peptidase_M48; cl12018 59374003508 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 59374003509 putative trimer interface [polypeptide binding]; other site 59374003510 putative CoA binding site [chemical binding]; other site 59374003511 Hereditary spastic paraplegia protein strumpellin; Region: Strumpellin; pfam10266 59374003512 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 59374003513 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 59374003514 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 59374003515 active site 59374003516 metal binding site [ion binding]; metal-binding site 59374003517 hexamer interface [polypeptide binding]; other site 59374003518 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 59374003519 Peptidase family M23; Region: Peptidase_M23; pfam01551 59374003520 ParB-like partition proteins; Region: parB_part; TIGR00180 59374003521 ParB-like nuclease domain; Region: ParBc; cl02129 59374003522 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 59374003523 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 59374003524 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374003525 P-loop; other site 59374003526 Magnesium ion binding site [ion binding]; other site 59374003527 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 59374003528 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 59374003529 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_3; cd07241 59374003530 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 59374003531 putative metal binding site [ion binding]; other site 59374003532 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 59374003533 putative ADP-ribose binding site [chemical binding]; other site 59374003534 putative active site [active] 59374003535 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 59374003536 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 59374003537 LemA family; Region: LemA; cl00742 59374003538 Membrane transport protein; Region: Mem_trans; cl09117 59374003539 bile acid transporter; Region: bass; TIGR00841 59374003540 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 59374003541 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 59374003542 active site 59374003543 NAD binding site [chemical binding]; other site 59374003544 metal binding site [ion binding]; metal-binding site 59374003545 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 59374003546 binding surface 59374003547 TPR motif; other site 59374003548 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 59374003549 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 59374003550 SecA DEAD-like domain; Region: SecA_DEAD; smart00957 59374003551 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 59374003552 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374003553 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 59374003554 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 59374003555 nucleotide binding region [chemical binding]; other site 59374003556 ATP-binding site [chemical binding]; other site 59374003557 SEC-C motif; Region: SEC-C; pfam02810 59374003558 thymidylate kinase; Validated; Region: tmk; PRK00698 59374003559 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 59374003560 TMP-binding site; other site 59374003561 ATP-binding site [chemical binding]; other site 59374003562 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 59374003563 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 59374003564 active site 59374003565 metal binding site [ion binding]; metal-binding site 59374003566 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 59374003567 active site 59374003568 NTP binding site [chemical binding]; other site 59374003569 metal binding triad [ion binding]; metal-binding site 59374003570 antibiotic binding site [chemical binding]; other site 59374003571 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 59374003572 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 59374003573 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 59374003574 binding surface 59374003575 TPR motif; other site 59374003576 LabA_like proteins; Region: LabA_like/DUF88; cl10034 59374003577 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 59374003578 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 59374003579 putative ligand binding site [chemical binding]; other site 59374003580 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 59374003581 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 59374003582 ligand binding site [chemical binding]; other site 59374003583 flexible hinge region; other site 59374003584 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 59374003585 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 59374003586 dimerization interface [polypeptide binding]; other site 59374003587 putative ATP binding site [chemical binding]; other site 59374003588 Glycosyl hydrolase family 45; Region: Glyco_hydro_45; pfam02015 59374003589 PA14 domain; Region: PA14; cl08459 59374003590 PA14 domain; Region: PA14; cl08459 59374003591 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 59374003592 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 59374003593 ABC transporter; Region: ABC_tran_2; pfam12848 59374003594 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 59374003595 regulatory ATPase RavA; Provisional; Region: PRK13531 59374003596 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 59374003597 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 59374003598 Tetramer interface [polypeptide binding]; other site 59374003599 active site 59374003600 FMN-binding site [chemical binding]; other site 59374003601 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 59374003602 Rubredoxin; Region: Rubredoxin; pfam00301 59374003603 iron binding site [ion binding]; other site 59374003604 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 59374003605 diiron binding motif [ion binding]; other site 59374003606 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 59374003607 metal binding site 2 [ion binding]; metal-binding site 59374003608 putative DNA binding helix; other site 59374003609 metal binding site 1 [ion binding]; metal-binding site 59374003610 dimer interface [polypeptide binding]; other site 59374003611 structural Zn2+ binding site [ion binding]; other site 59374003612 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 59374003613 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374003614 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 59374003615 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 59374003616 Cation transport protein; Region: TrkH; cl10514 59374003617 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003618 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 59374003619 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 59374003620 ABC transporter ATPase component; Reviewed; Region: PRK11147 59374003621 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374003622 Walker A/P-loop; other site 59374003623 ATP binding site [chemical binding]; other site 59374003624 Q-loop/lid; other site 59374003625 ABC transporter signature motif; other site 59374003626 Walker B; other site 59374003627 D-loop; other site 59374003628 H-loop/switch region; other site 59374003629 ABC transporter; Region: ABC_tran_2; pfam12848 59374003630 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 59374003631 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; cl15292 59374003632 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 59374003633 Acetokinase family; Region: Acetate_kinase; cl01029 59374003634 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 59374003635 active site 59374003636 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 59374003637 catalytic core [active] 59374003638 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14192 59374003639 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 59374003640 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 59374003641 homodimer interface [polypeptide binding]; other site 59374003642 NADP binding site [chemical binding]; other site 59374003643 substrate binding site [chemical binding]; other site 59374003644 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 59374003645 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 59374003646 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 59374003647 N-acetylglutamate synthase; Validated; Region: PRK05279 59374003648 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 59374003649 nucleotide binding site [chemical binding]; other site 59374003650 substrate binding site [chemical binding]; other site 59374003651 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 59374003652 Coenzyme A binding pocket [chemical binding]; other site 59374003653 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 59374003654 FMN binding site [chemical binding]; other site 59374003655 dimer interface [polypeptide binding]; other site 59374003656 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003657 hypothetical protein, TIGR02147; Region: Fsuc_second 59374003658 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 59374003659 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 59374003660 homodecamer interface [polypeptide binding]; other site 59374003661 GTP cyclohydrolase I; Provisional; Region: PLN03044 59374003662 active site 59374003663 putative catalytic site residues [active] 59374003664 zinc binding site [ion binding]; other site 59374003665 GTP-CH-I/GFRP interaction surface; other site 59374003666 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 59374003667 Chlorophyllase enzyme; Region: Chlorophyllase2; pfam12740 59374003668 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 59374003669 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 59374003670 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 59374003671 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 59374003672 LysE type translocator; Region: LysE; cl00565 59374003673 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 59374003674 DsbD alpha interface [polypeptide binding]; other site 59374003675 catalytic residues [active] 59374003676 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 59374003677 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 59374003678 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 59374003679 DNA polymerase III subunit beta; Provisional; Region: PRK14946 59374003680 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 59374003681 Flagellar hook capping protein; Region: FlgD; cl04347 59374003682 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 59374003683 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 59374003684 active site 59374003685 NTP binding site [chemical binding]; other site 59374003686 metal binding triad [ion binding]; metal-binding site 59374003687 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 59374003688 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 59374003689 active site 59374003690 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 59374003691 acyl-[acyl-carrier-protein]--UDP-N- acetylglucosamine O-acyltransferase; Region: lipid_A_lpxA; TIGR01852 59374003692 active site 59374003693 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 59374003694 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 59374003695 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cd00598 59374003696 active site 59374003697 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 59374003698 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 59374003699 aminodeoxychorismate synthase; Provisional; Region: PRK07508 59374003700 chorismate binding enzyme; Region: Chorismate_bind; cl10555 59374003701 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 59374003702 substrate-cofactor binding pocket; other site 59374003703 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374003704 catalytic residue [active] 59374003705 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 59374003706 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 59374003707 substrate binding site [chemical binding]; other site 59374003708 hexamer interface [polypeptide binding]; other site 59374003709 metal binding site [ion binding]; metal-binding site 59374003710 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 59374003711 diaminopimelate decarboxylase; Provisional; Region: PRK11165 59374003712 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 59374003713 active site 59374003714 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 59374003715 substrate binding site [chemical binding]; other site 59374003716 catalytic residues [active] 59374003717 dimer interface [polypeptide binding]; other site 59374003718 Catalytic domain of Protein Kinases; Region: PKc; cd00180 59374003719 active site 59374003720 ATP binding site [chemical binding]; other site 59374003721 substrate binding site [chemical binding]; other site 59374003722 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 59374003723 substrate binding site [chemical binding]; other site 59374003724 activation loop (A-loop); other site 59374003725 activation loop (A-loop); other site 59374003726 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 59374003727 metal ion-dependent adhesion site (MIDAS); other site 59374003728 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 59374003729 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 59374003730 FeS/SAM binding site; other site 59374003731 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 59374003732 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs); Region: Era_like; cd00880 59374003733 G1 box; other site 59374003734 GTP/Mg2+ binding site [chemical binding]; other site 59374003735 Switch I region; other site 59374003736 G2 box; other site 59374003737 Switch II region; other site 59374003738 G3 box; other site 59374003739 G4 box; other site 59374003740 G5 box; other site 59374003741 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs); Region: Era_like; cd00880 59374003742 G1 box; other site 59374003743 GTP/Mg2+ binding site [chemical binding]; other site 59374003744 Switch I region; other site 59374003745 Switch II region; other site 59374003746 G3 box; other site 59374003747 G4 box; other site 59374003748 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 59374003749 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 59374003750 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09668 59374003751 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 59374003752 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 59374003753 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 59374003754 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 59374003755 Membrane transport protein; Region: Mem_trans; cl09117 59374003756 Cupin domain; Region: Cupin_2; cl09118 59374003757 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 59374003758 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 59374003759 active site 59374003760 substrate binding site [chemical binding]; other site 59374003761 metal binding site [ion binding]; metal-binding site 59374003762 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 59374003763 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374003764 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 59374003765 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374003766 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 59374003767 LabA_like proteins; Region: LabA_like/DUF88; cl10034 59374003768 putative metal binding site [ion binding]; other site 59374003769 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cl14879 59374003770 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 59374003771 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 59374003772 active site 59374003773 phosphorylation site [posttranslational modification] 59374003774 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 59374003775 active site 59374003776 catalytic residue [active] 59374003777 dimer interface [polypeptide binding]; other site 59374003778 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 59374003779 oligomer interface [polypeptide binding]; other site 59374003780 active site residues [active] 59374003781 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 59374003782 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 59374003783 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 59374003784 P loop; other site 59374003785 GTP binding site [chemical binding]; other site 59374003786 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 59374003787 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 59374003788 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 59374003789 DXD motif; other site 59374003790 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 59374003791 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 59374003792 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 59374003793 Response regulator receiver domain; Region: Response_reg; pfam00072 59374003794 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 59374003795 active site 59374003796 phosphorylation site [posttranslational modification] 59374003797 intermolecular recognition site; other site 59374003798 dimerization interface [polypeptide binding]; other site 59374003799 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374003800 metal binding site [ion binding]; metal-binding site 59374003801 active site 59374003802 I-site; other site 59374003803 Entner-Doudoroff aldolase; Region: eda; TIGR01182 59374003804 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 59374003805 active site 59374003806 intersubunit interface [polypeptide binding]; other site 59374003807 catalytic residue [active] 59374003808 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 59374003809 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 59374003810 FtsX-like permease family; Region: FtsX; pfam02687 59374003811 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 59374003812 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 59374003813 Walker A/P-loop; other site 59374003814 ATP binding site [chemical binding]; other site 59374003815 Q-loop/lid; other site 59374003816 ABC transporter signature motif; other site 59374003817 Walker B; other site 59374003818 D-loop; other site 59374003819 H-loop/switch region; other site 59374003820 tyrosine kinase; Provisional; Region: PRK11519 59374003821 Chain length determinant protein; Region: Wzz; cl01623 59374003822 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 59374003823 P-loop; other site 59374003824 Magnesium ion binding site [ion binding]; other site 59374003825 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 59374003826 ligand binding site [chemical binding]; other site 59374003827 GtrA-like protein; Region: GtrA; cl00971 59374003828 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 59374003829 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 59374003830 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 59374003831 catalytic core [active] 59374003832 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 59374003833 catalytic core [active] 59374003834 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 59374003835 carboxyltransferase (CT) interaction site; other site 59374003836 biotinylation site [posttranslational modification]; other site 59374003837 subunit; Region: OAD_beta; cl00816 59374003838 hypothetical protein, TIGR02147; Region: Fsuc_second 59374003839 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003840 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003841 hypothetical protein, TIGR02147; Region: Fsuc_second 59374003842 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003843 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003844 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003845 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003846 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003847 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003848 Archaeal ATPase; Region: Arch_ATPase; pfam01637 59374003849 hypothetical protein, TIGR02147; Region: Fsuc_second 59374003850 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003851 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003852 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003853 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003854 hypothetical protein, TIGR02147; Region: Fsuc_second 59374003855 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003856 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003857 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374003858 Cache domain; Region: Cache_1; pfam02743 59374003859 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 59374003860 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 59374003861 dimerization interface [polypeptide binding]; other site 59374003862 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 59374003863 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 59374003864 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 59374003865 phosphate binding site [ion binding]; other site 59374003866 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 59374003867 active site 59374003868 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 59374003869 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 59374003870 hinge; other site 59374003871 active site 59374003872 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 59374003873 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 59374003874 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl15297 59374003875 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 59374003876 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 59374003877 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 59374003878 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 59374003879 GDP-binding site [chemical binding]; other site 59374003880 ACT binding site; other site 59374003881 IMP binding site; other site 59374003882 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 59374003883 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 59374003884 ligand binding site [chemical binding]; other site 59374003885 flexible hinge region; other site 59374003886 Helix-turn-helix domains; Region: HTH; cl00088 59374003887 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 59374003888 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 59374003889 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 59374003890 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 59374003891 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 59374003892 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374003893 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 59374003894 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 59374003895 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 59374003896 active site 59374003897 phosphorylation site [posttranslational modification] 59374003898 intermolecular recognition site; other site 59374003899 dimerization interface [polypeptide binding]; other site 59374003900 LytTr DNA-binding domain; Region: LytTR; cl04498 59374003901 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 59374003902 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 59374003903 Catalytic site [active] 59374003904 signal peptidase I; Provisional; Region: PRK10861 59374003905 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 59374003906 Middle domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_M; cd10316 59374003907 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 59374003908 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 59374003909 active site 59374003910 substrate binding site [chemical binding]; other site 59374003911 catalytic site [active] 59374003912 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374003913 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374003914 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 59374003915 active site 59374003916 catalytic triad [active] 59374003917 oxyanion hole [active] 59374003918 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374003919 metal binding site [ion binding]; metal-binding site 59374003920 active site 59374003921 I-site; other site 59374003922 hypothetical protein, TIGR02147; Region: Fsuc_second 59374003923 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 59374003924 substrate binding pocket [chemical binding]; other site 59374003925 chain length determination region; other site 59374003926 substrate-Mg2+ binding site; other site 59374003927 catalytic residues [active] 59374003928 aspartate-rich region 1; other site 59374003929 active site lid residues [active] 59374003930 aspartate-rich region 2; other site 59374003931 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 59374003932 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 59374003933 TPP-binding site; other site 59374003934 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 59374003935 PYR/PP interface [polypeptide binding]; other site 59374003936 dimer interface [polypeptide binding]; other site 59374003937 TPP binding site [chemical binding]; other site 59374003938 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 59374003939 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 59374003940 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 59374003941 active site 59374003942 dimer interface [polypeptide binding]; other site 59374003943 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 59374003944 mce related protein; Region: MCE; cl15431 59374003945 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 59374003946 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 59374003947 active site 59374003948 metal binding site [ion binding]; metal-binding site 59374003949 OpgC protein; Region: OpgC_C; cl00792 59374003950 Acyltransferase family; Region: Acyl_transf_3; pfam01757 59374003951 Mannosyltransferase (PIG-V)); Region: Mannosyl_trans2; cl02342 59374003952 NPCBM/NEW2 domain; Region: NPCBM; cl07060 59374003953 TIGR03663 family protein; Region: TIGR03663 59374003954 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl15364 59374003955 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 59374003956 binding surface 59374003957 TPR motif; other site 59374003958 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 59374003959 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 59374003960 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 59374003961 DXD motif; other site 59374003962 Permease family; Region: Xan_ur_permease; cl00967 59374003963 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 59374003964 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 59374003965 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 59374003966 hypothetical protein; Provisional; Region: PRK13795 59374003967 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 59374003968 Active Sites [active] 59374003969 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 59374003970 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 59374003971 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 59374003972 catalytic residue [active] 59374003973 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_a; cd09179 59374003974 putative active site [active] 59374003975 catalytic site [active] 59374003976 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 59374003977 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374003978 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 59374003979 putative Mg++ binding site [ion binding]; other site 59374003980 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 59374003981 nucleotide binding region [chemical binding]; other site 59374003982 ATP-binding site [chemical binding]; other site 59374003983 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 59374003984 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374003985 Walker A/P-loop; other site 59374003986 ATP binding site [chemical binding]; other site 59374003987 DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]; Region: RpoD; COG0568 59374003988 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 59374003989 Helix-turn-helix domains; Region: HTH; cl00088 59374003990 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 59374003991 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 59374003992 FeoA domain; Region: FeoA; cl00838 59374003993 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 59374003994 ferrous iron transporter FeoB; Region: feoB; TIGR00437 59374003995 G1 box; other site 59374003996 GTP/Mg2+ binding site [chemical binding]; other site 59374003997 Switch I region; other site 59374003998 G2 box; other site 59374003999 G3 box; other site 59374004000 Switch II region; other site 59374004001 G4 box; other site 59374004002 G5 box; other site 59374004003 Nucleoside recognition; Region: Gate; cl00486 59374004004 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 59374004005 Nucleoside recognition; Region: Gate; cl00486 59374004006 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 59374004007 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 59374004008 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 59374004009 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 59374004010 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 59374004011 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 59374004012 motif II; other site 59374004013 Fic/DOC family; Region: Fic; cl00960 59374004014 Helix-turn-helix domains; Region: HTH; cl00088 59374004015 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 59374004016 Protein export membrane protein; Region: SecD_SecF; cl14618 59374004017 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 59374004018 Cobalt transport protein; Region: CbiQ; cl00463 59374004019 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 59374004020 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 59374004021 Walker A/P-loop; other site 59374004022 ATP binding site [chemical binding]; other site 59374004023 Q-loop/lid; other site 59374004024 ABC transporter signature motif; other site 59374004025 Walker B; other site 59374004026 D-loop; other site 59374004027 H-loop/switch region; other site 59374004028 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 59374004029 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374004030 Walker A/P-loop; other site 59374004031 ATP binding site [chemical binding]; other site 59374004032 Q-loop/lid; other site 59374004033 ABC transporter signature motif; other site 59374004034 Walker B; other site 59374004035 D-loop; other site 59374004036 H-loop/switch region; other site 59374004037 Carbohydrate Binding Module family 35 (CBM35); appended mainly to enzymes that bind alpha-D-galactose (CBM35-Gal), including glycoside hydrolase (GH) families GH31 and GH43; Region: CBM35_galactosidase-like; cd04081 59374004038 Ca binding site [ion binding]; other site 59374004039 Glycosyl hydrolase family 26; Region: Glyco_hydro_26; cl09200 59374004040 hypothetical protein, TIGR02147; Region: Fsuc_second 59374004041 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 59374004042 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 59374004043 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 59374004044 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 59374004045 Cupin domain; Region: Cupin_2; cl09118 59374004046 maltose O-acetyltransferase; Provisional; Region: PRK10092 59374004047 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 59374004048 active site 59374004049 substrate binding site [chemical binding]; other site 59374004050 trimer interface [polypeptide binding]; other site 59374004051 CoA binding site [chemical binding]; other site 59374004052 Phosphate transporter family; Region: PHO4; cl00396 59374004053 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 59374004054 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 59374004055 active site 59374004056 phosphorylation site [posttranslational modification] 59374004057 intermolecular recognition site; other site 59374004058 dimerization interface [polypeptide binding]; other site 59374004059 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 59374004060 DNA binding site [nucleotide binding] 59374004061 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 59374004062 dimer interface [polypeptide binding]; other site 59374004063 phosphorylation site [posttranslational modification] 59374004064 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 59374004065 ATP binding site [chemical binding]; other site 59374004066 Mg2+ binding site [ion binding]; other site 59374004067 G-X-G motif; other site 59374004068 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 59374004069 PhoU domain; Region: PhoU; pfam01895 59374004070 PhoU domain; Region: PhoU; pfam01895 59374004071 phosphate transporter ATP-binding protein; Provisional; Region: PRK14240 59374004072 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 59374004073 Walker A/P-loop; other site 59374004074 ATP binding site [chemical binding]; other site 59374004075 Q-loop/lid; other site 59374004076 ABC transporter signature motif; other site 59374004077 Walker B; other site 59374004078 D-loop; other site 59374004079 H-loop/switch region; other site 59374004080 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 59374004081 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 59374004082 dimer interface [polypeptide binding]; other site 59374004083 conserved gate region; other site 59374004084 putative PBP binding loops; other site 59374004085 ABC-ATPase subunit interface; other site 59374004086 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 59374004087 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 59374004088 dimer interface [polypeptide binding]; other site 59374004089 conserved gate region; other site 59374004090 putative PBP binding loops; other site 59374004091 ABC-ATPase subunit interface; other site 59374004092 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 59374004093 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 59374004094 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 59374004095 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 59374004096 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 59374004097 active site 59374004098 catalytic tetrad [active] 59374004099 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 59374004100 Helix-turn-helix domains; Region: HTH; cl00088 59374004101 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 59374004102 dimerization interface [polypeptide binding]; other site 59374004103 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 59374004104 Domain of unknown function (DUF369); Region: DUF369; cl00950 59374004105 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 59374004106 Protein of unknown function (DUF1349); Region: DUF1349; cl01397 59374004107 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 59374004108 Protein of unknown function (DUF1016); Region: DUF1016; cl01979 59374004109 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 59374004110 DEAD-like helicases superfamily; Region: DEXDc; smart00487 59374004111 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 59374004112 ATP binding site [chemical binding]; other site 59374004113 putative Mg++ binding site [ion binding]; other site 59374004114 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 59374004115 nucleotide binding region [chemical binding]; other site 59374004116 ATP-binding site [chemical binding]; other site 59374004117 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 59374004118 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 59374004119 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 59374004120 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 59374004121 HsdM N-terminal domain; Region: HsdM_N; pfam12161 59374004122 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 59374004123 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 59374004124 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 59374004125 Transcriptional regulator [Transcription]; Region: LysR; COG0583 59374004126 Helix-turn-helix domains; Region: HTH; cl00088 59374004127 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 59374004128 dimerization interface [polypeptide binding]; other site 59374004129 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 59374004130 Archaeal ATPase; Region: Arch_ATPase; pfam01637 59374004131 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 59374004132 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 59374004133 ZIP Zinc transporter; Region: Zip; pfam02535 59374004134 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 59374004135 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 59374004136 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 59374004137 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 59374004138 S-adenosylmethionine binding site [chemical binding]; other site 59374004139 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 59374004140 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374004141 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 59374004142 Walker A/P-loop; other site 59374004143 ATP binding site [chemical binding]; other site 59374004144 Q-loop/lid; other site 59374004145 ABC transporter signature motif; other site 59374004146 Walker B; other site 59374004147 D-loop; other site 59374004148 H-loop/switch region; other site 59374004149 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 59374004150 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 59374004151 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374004152 Walker A/P-loop; other site 59374004153 ATP binding site [chemical binding]; other site 59374004154 Q-loop/lid; other site 59374004155 ABC transporter signature motif; other site 59374004156 Walker B; other site 59374004157 D-loop; other site 59374004158 H-loop/switch region; other site 59374004159 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 59374004160 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 59374004161 N-terminal plug; other site 59374004162 ligand-binding site [chemical binding]; other site 59374004163 FeoA domain; Region: FeoA; cl00838 59374004164 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 59374004165 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 59374004166 G1 box; other site 59374004167 GTP/Mg2+ binding site [chemical binding]; other site 59374004168 Switch I region; other site 59374004169 G2 box; other site 59374004170 G3 box; other site 59374004171 Switch II region; other site 59374004172 G4 box; other site 59374004173 G5 box; other site 59374004174 Nucleoside recognition; Region: Gate; cl00486 59374004175 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 59374004176 Nucleoside recognition; Region: Gate; cl00486 59374004177 Gram-negative bacterial tonB protein; Region: TonB; cl10048 59374004178 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 59374004179 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 59374004180 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 59374004181 Protein export membrane protein; Region: SecD_SecF; cl14618 59374004182 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 59374004183 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 59374004184 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 59374004185 Cache domain; Region: Cache_1; pfam02743 59374004186 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 59374004187 dimerization interface [polypeptide binding]; other site 59374004188 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374004189 metal binding site [ion binding]; metal-binding site 59374004190 active site 59374004191 I-site; other site 59374004192 Cache domain; Region: Cache_1; pfam02743 59374004193 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 59374004194 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374004195 metal binding site [ion binding]; metal-binding site 59374004196 active site 59374004197 I-site; other site 59374004198 Uncharacterised ACR, YggU family COG1872; Region: DUF167; cl00811 59374004199 DivIVA protein; Region: DivIVA; pfam05103 59374004200 DivIVA domain; Region: DivI1A_domain; TIGR03544 59374004201 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 59374004202 Ribonuclease P; Region: Ribonuclease_P; cl00457 59374004203 Domain of unknown function DUF37; Region: DUF37; cl00506 59374004204 membrane protein insertase; Provisional; Region: PRK01318 59374004205 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 59374004206 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 59374004207 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 59374004208 dimer interface [polypeptide binding]; other site 59374004209 catalytic triad [active] 59374004210 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 59374004211 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 59374004212 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 59374004213 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 59374004214 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374004215 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374004216 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374004217 hypothetical protein, TIGR02147; Region: Fsuc_second 59374004218 Glycosyl hydrolases family 43; Region: Glyco_hydro_43; pfam04616 59374004219 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 59374004220 active site 59374004221 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 59374004222 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374004223 putative metal binding site [ion binding]; other site 59374004224 Glycosyl hydrolases family 43; Region: Glyco_hydro_43; pfam04616 59374004225 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 59374004226 active site 59374004227 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 59374004228 ligand binding site [chemical binding]; other site 59374004229 metal binding site [ion binding]; metal-binding site 59374004230 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374004231 putative metal binding site [ion binding]; other site 59374004232 Glycosyl hydrolases family 43; Region: Glyco_hydro_43; pfam04616 59374004233 Glycosyl hydrolase family 43; Region: GH43_AXH_1; cd09003 59374004234 substrate binding site [chemical binding]; other site 59374004235 active site 59374004236 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 59374004237 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374004238 putative metal binding site [ion binding]; other site 59374004239 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 59374004240 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 59374004241 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374004242 putative metal binding site [ion binding]; other site 59374004243 Domain of unknown function (DUF303); Region: DUF303; pfam03629 59374004244 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374004245 putative metal binding site [ion binding]; other site 59374004246 Domain of unknown function (DUF303); Region: DUF303; pfam03629 59374004247 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374004248 putative metal binding site [ion binding]; other site 59374004249 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374004250 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 59374004251 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 59374004252 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 59374004253 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_2; cd09001 59374004254 active site 59374004255 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374004256 putative metal binding site [ion binding]; other site 59374004257 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 59374004258 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 59374004259 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 59374004260 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 59374004261 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374004262 putative metal binding site [ion binding]; other site 59374004263 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374004264 putative metal binding site [ion binding]; other site 59374004265 Glycosyl hydrolases family 43; Region: Glyco_hydro_43; pfam04616 59374004266 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 59374004267 substrate binding site [chemical binding]; other site 59374004268 active site 59374004269 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 59374004270 metal binding site [ion binding]; metal-binding site 59374004271 ligand binding site [chemical binding]; other site 59374004272 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374004273 putative metal binding site [ion binding]; other site 59374004274 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 59374004275 HipA-like N-terminal domain; Region: HipA_N; pfam07805 59374004276 HipA-like C-terminal domain; Region: HipA_C; pfam07804 59374004277 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 59374004278 non-specific DNA binding site [nucleotide binding]; other site 59374004279 salt bridge; other site 59374004280 sequence-specific DNA binding site [nucleotide binding]; other site 59374004281 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374004282 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374004283 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 59374004284 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 59374004285 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374004286 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374004287 Protein of unknown function DUF262; Region: DUF262; cl14890 59374004288 Protein of unknown function DUF262; Region: DUF262; cl14890 59374004289 Protein of unknown function DUF262; Region: DUF262; cl14890 59374004290 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 59374004291 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 59374004292 domain; Region: Glyco_hydro_2; pfam00703 59374004293 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 59374004294 Carbohydrate Binding Module 6 (CBM6); appended to glycoside hydrolase (GH) domains, including GH5 (cellulase); Region: CBM6_cellulase-like; cd04080 59374004295 Ca binding site [ion binding]; other site 59374004296 ligand binding site I [chemical binding]; other site 59374004297 homodimer interface [polypeptide binding]; other site 59374004298 ligand binding site II [chemical binding]; other site 59374004299 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 59374004300 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374004301 putative metal binding site [ion binding]; other site 59374004302 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 59374004303 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374004304 putative metal binding site [ion binding]; other site 59374004305 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 59374004306 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374004307 putative metal binding site [ion binding]; other site 59374004308 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 59374004309 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374004310 putative metal binding site [ion binding]; other site 59374004311 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 59374004312 dimer interface [polypeptide binding]; other site 59374004313 phosphorylation site [posttranslational modification] 59374004314 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 59374004315 ATP binding site [chemical binding]; other site 59374004316 Mg2+ binding site [ion binding]; other site 59374004317 G-X-G motif; other site 59374004318 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 59374004319 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 59374004320 active site 59374004321 phosphorylation site [posttranslational modification] 59374004322 intermolecular recognition site; other site 59374004323 dimerization interface [polypeptide binding]; other site 59374004324 Response regulator receiver domain; Region: Response_reg; pfam00072 59374004325 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 59374004326 active site 59374004327 phosphorylation site [posttranslational modification] 59374004328 intermolecular recognition site; other site 59374004329 dimerization interface [polypeptide binding]; other site 59374004330 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 59374004331 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 59374004332 active site 59374004333 phosphorylation site [posttranslational modification] 59374004334 intermolecular recognition site; other site 59374004335 dimerization interface [polypeptide binding]; other site 59374004336 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 59374004337 Zn2+ binding site [ion binding]; other site 59374004338 Mg2+ binding site [ion binding]; other site 59374004339 OpgC protein; Region: OpgC_C; cl00792 59374004340 Acyltransferase family; Region: Acyl_transf_3; pfam01757 59374004341 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 59374004342 dimer interface [polypeptide binding]; other site 59374004343 phosphorylation site [posttranslational modification] 59374004344 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 59374004345 ATP binding site [chemical binding]; other site 59374004346 Mg2+ binding site [ion binding]; other site 59374004347 G-X-G motif; other site 59374004348 Response regulator receiver domain; Region: Response_reg; pfam00072 59374004349 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 59374004350 active site 59374004351 phosphorylation site [posttranslational modification] 59374004352 intermolecular recognition site; other site 59374004353 dimerization interface [polypeptide binding]; other site 59374004354 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 59374004355 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 59374004356 active site 59374004357 phosphorylation site [posttranslational modification] 59374004358 intermolecular recognition site; other site 59374004359 dimerization interface [polypeptide binding]; other site 59374004360 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 59374004361 Zn2+ binding site [ion binding]; other site 59374004362 Mg2+ binding site [ion binding]; other site 59374004363 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 59374004364 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 59374004365 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 59374004366 dimer interface [polypeptide binding]; other site 59374004367 phosphorylation site [posttranslational modification] 59374004368 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 59374004369 ATP binding site [chemical binding]; other site 59374004370 Mg2+ binding site [ion binding]; other site 59374004371 G-X-G motif; other site 59374004372 Response regulator receiver domain; Region: Response_reg; pfam00072 59374004373 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 59374004374 active site 59374004375 phosphorylation site [posttranslational modification] 59374004376 intermolecular recognition site; other site 59374004377 dimerization interface [polypeptide binding]; other site 59374004378 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 59374004379 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 59374004380 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 59374004381 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 59374004382 putative substrate translocation pore; other site 59374004383 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 59374004384 Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: IleS; COG0060 59374004385 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 59374004386 HIGH motif; other site 59374004387 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 59374004388 active site 59374004389 KMSKS motif; other site 59374004390 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 59374004391 tRNA binding surface [nucleotide binding]; other site 59374004392 anticodon binding site; other site 59374004393 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374004394 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 59374004395 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 59374004396 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 59374004397 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 59374004398 LL-diaminopimelate aminotransferase; Region: DAPAT_plant; TIGR03542 59374004399 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 59374004400 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374004401 homodimer interface [polypeptide binding]; other site 59374004402 catalytic residue [active] 59374004403 Nif-specific regulatory protein; Region: nifA; TIGR01817 59374004404 GAF domain; Region: GAF; cl00853 59374004405 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 59374004406 Walker A motif; other site 59374004407 ATP binding site [chemical binding]; other site 59374004408 Walker B motif; other site 59374004409 arginine finger; other site 59374004410 Helix-turn-helix domains; Region: HTH; cl00088 59374004411 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 59374004412 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 59374004413 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 59374004414 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 59374004415 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 59374004416 active site 59374004417 dimer interface [polypeptide binding]; other site 59374004418 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 59374004419 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 59374004420 active site 59374004421 FMN binding site [chemical binding]; other site 59374004422 substrate binding site [chemical binding]; other site 59374004423 3Fe-4S cluster binding site [ion binding]; other site 59374004424 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 59374004425 domain interface; other site 59374004426 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 59374004427 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 59374004428 NAD(P) binding site [chemical binding]; other site 59374004429 NAD synthetase; Reviewed; Region: nadE; PRK02628 59374004430 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 59374004431 multimer interface [polypeptide binding]; other site 59374004432 active site 59374004433 catalytic triad [active] 59374004434 protein interface 1 [polypeptide binding]; other site 59374004435 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 59374004436 homodimer interface [polypeptide binding]; other site 59374004437 NAD binding pocket [chemical binding]; other site 59374004438 ATP binding pocket [chemical binding]; other site 59374004439 Mg binding site [ion binding]; other site 59374004440 active-site loop [active] 59374004441 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 59374004442 Nitrogen regulatory protein P-II; Region: P-II; cl00412 59374004443 CTP synthetase; Validated; Region: pyrG; PRK05380 59374004444 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 59374004445 Catalytic site [active] 59374004446 active site 59374004447 UTP binding site [chemical binding]; other site 59374004448 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 59374004449 active site 59374004450 putative oxyanion hole; other site 59374004451 catalytic triad [active] 59374004452 A new structural DNA glycosylase; Region: AlkD_like; cd06561 59374004453 active site 59374004454 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 59374004455 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 59374004456 Z1 domain; Region: Z1; pfam10593 59374004457 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 59374004458 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 59374004459 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 59374004460 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 59374004461 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374004462 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374004463 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374004464 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 59374004465 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 59374004466 active site 59374004467 ATP binding site [chemical binding]; other site 59374004468 substrate binding site [chemical binding]; other site 59374004469 activation loop (A-loop); other site 59374004470 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 59374004471 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 59374004472 RelB antitoxin; Region: RelB; cl01171 59374004473 Protein of unknown function (DUF3680); Region: DUF3680; cl02189 59374004474 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374004475 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 59374004476 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 59374004477 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 59374004478 putative nucleotide binding site [chemical binding]; other site 59374004479 uridine monophosphate binding site [chemical binding]; other site 59374004480 homohexameric interface [polypeptide binding]; other site 59374004481 ribosome recycling factor; Reviewed; Region: frr; PRK00083 59374004482 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 59374004483 hinge region; other site 59374004484 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 59374004485 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 59374004486 catalytic residue [active] 59374004487 putative FPP diphosphate binding site; other site 59374004488 putative FPP binding hydrophobic cleft; other site 59374004489 dimer interface [polypeptide binding]; other site 59374004490 putative IPP diphosphate binding site; other site 59374004491 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 59374004492 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 59374004493 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 59374004494 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 59374004495 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 59374004496 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 59374004497 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 59374004498 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 59374004499 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 59374004500 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 59374004501 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 59374004502 RIP metalloprotease RseP; Region: TIGR00054 59374004503 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 59374004504 active site 59374004505 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 59374004506 protein binding site [polypeptide binding]; other site 59374004507 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 59374004508 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 59374004509 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 59374004510 putative substrate binding region [chemical binding]; other site 59374004511 putative substrate binding region [chemical binding]; other site 59374004512 Cupin domain; Region: Cupin_2; cl09118 59374004513 RDD family; Region: RDD; cl00746 59374004514 TSCPD domain; Region: TSCPD; cl14834 59374004515 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 59374004516 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 59374004517 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 59374004518 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 59374004519 Coenzyme A binding pocket [chemical binding]; other site 59374004520 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 59374004521 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 59374004522 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 59374004523 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 59374004524 AIR carboxylase; Region: AIRC; cl00310 59374004525 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 59374004526 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 59374004527 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 59374004528 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 59374004529 FeS/SAM binding site; other site 59374004530 Sporulation related domain; Region: SPOR; cl10051 59374004531 Cache domain; Region: Cache_1; pfam02743 59374004532 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 59374004533 dimerization interface [polypeptide binding]; other site 59374004534 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 59374004535 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 59374004536 GatB domain; Region: GatB_Yqey; cl11497 59374004537 Nif-specific regulatory protein; Region: nifA; TIGR01817 59374004538 GAF domain; Region: GAF; cl00853 59374004539 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 59374004540 Walker A motif; other site 59374004541 ATP binding site [chemical binding]; other site 59374004542 Walker B motif; other site 59374004543 arginine finger; other site 59374004544 Helix-turn-helix domains; Region: HTH; cl00088 59374004545 Transcriptional regulator [Transcription]; Region: LysR; COG0583 59374004546 Helix-turn-helix domains; Region: HTH; cl00088 59374004547 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 59374004548 dimerization interface [polypeptide binding]; other site 59374004549 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 59374004550 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 59374004551 active site 59374004552 HIGH motif; other site 59374004553 dimer interface [polypeptide binding]; other site 59374004554 KMSKS motif; other site 59374004555 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 59374004556 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 59374004557 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 59374004558 putative substrate binding site [chemical binding]; other site 59374004559 putative ATP binding site [chemical binding]; other site 59374004560 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 59374004561 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 59374004562 Pectinesterase; Region: Pectinesterase; cl01911 59374004563 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 59374004564 ligand binding site [chemical binding]; other site 59374004565 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 59374004566 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 59374004567 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 59374004568 binding surface 59374004569 TPR motif; other site 59374004570 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 59374004571 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 59374004572 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 59374004573 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 59374004574 rod shape-determining protein MreB; Provisional; Region: PRK13927 59374004575 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 59374004576 ATP binding site [chemical binding]; other site 59374004577 gelsolin binding site; other site 59374004578 profilin binding site; other site 59374004579 rod shape-determining protein MreC; Provisional; Region: PRK13922 59374004580 rod shape-determining protein MreC; Region: MreC; pfam04085 59374004581 rod shape-determining protein MreD; Region: MreD; cl01087 59374004582 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 59374004583 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 59374004584 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 59374004585 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 59374004586 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 59374004587 GAF domain; Region: GAF; cl00853 59374004588 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 59374004589 Zn2+ binding site [ion binding]; other site 59374004590 Mg2+ binding site [ion binding]; other site 59374004591 CotH protein; Region: CotH; pfam08757 59374004592 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 59374004593 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 59374004594 Flavoprotein; Region: Flavoprotein; cl08021 59374004595 aromatic acid decarboxylase; Validated; Region: PRK05920 59374004596 UbiA prenyltransferase family; Region: UbiA; cl00337 59374004597 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374004598 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374004599 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 59374004600 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 59374004601 putative glycoprotease GCP; Region: bact_gcp; TIGR03723 59374004602 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 59374004603 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 59374004604 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 59374004605 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 59374004606 Peptidase family M23; Region: Peptidase_M23; pfam01551 59374004607 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374004608 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 59374004609 Walker A motif; other site 59374004610 ATP binding site [chemical binding]; other site 59374004611 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374004612 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 59374004613 DHH family; Region: DHH; pfam01368 59374004614 DHHA1 domain; Region: DHHA1; pfam02272 59374004615 hypothetical protein; Provisional; Region: PRK10506 59374004616 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 59374004617 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 59374004618 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 59374004619 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 59374004620 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 59374004621 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 59374004622 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 59374004623 hypothetical protein, TIGR02147; Region: Fsuc_second 59374004624 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 59374004625 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 59374004626 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 59374004627 active site 59374004628 homodimer interface [polypeptide binding]; other site 59374004629 catalytic site [active] 59374004630 acceptor binding site [chemical binding]; other site 59374004631 Glycosyl hydrolase family 45; Region: Glyco_hydro_45; pfam02015 59374004632 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 59374004633 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 59374004634 ATP binding site [chemical binding]; other site 59374004635 Mg++ binding site [ion binding]; other site 59374004636 motif III; other site 59374004637 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 59374004638 nucleotide binding region [chemical binding]; other site 59374004639 ATP-binding site [chemical binding]; other site 59374004640 DbpA RNA binding domain; Region: DbpA; pfam03880 59374004641 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 59374004642 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374004643 Walker A/P-loop; other site 59374004644 ATP binding site [chemical binding]; other site 59374004645 Q-loop/lid; other site 59374004646 ABC transporter signature motif; other site 59374004647 Walker B; other site 59374004648 D-loop; other site 59374004649 H-loop/switch region; other site 59374004650 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 59374004651 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 59374004652 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 59374004653 LytB protein; Region: LYTB; cl00507 59374004654 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 59374004655 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 59374004656 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 59374004657 active site 59374004658 substrate binding site [chemical binding]; other site 59374004659 catalytic site [active] 59374004660 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 59374004661 putative acyl-acceptor binding pocket; other site 59374004662 A new structural DNA glycosylase; Region: AlkD_like; cl11434 59374004663 active site 59374004664 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 59374004665 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 59374004666 FeS/SAM binding site; other site 59374004667 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 59374004668 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374004669 ABC transporter signature motif; other site 59374004670 Walker B; other site 59374004671 D-loop; other site 59374004672 multidrug resistance protein (mdr1); Provisional; Region: PTZ00265 59374004673 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 59374004674 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374004675 Walker A/P-loop; other site 59374004676 ATP binding site [chemical binding]; other site 59374004677 Q-loop/lid; other site 59374004678 ABC transporter signature motif; other site 59374004679 Walker B; other site 59374004680 D-loop; other site 59374004681 H-loop/switch region; other site 59374004682 CrcB-like protein; Region: CRCB; cl09114 59374004683 Domain of unknown function DUF59; Region: DUF59; cl00941 59374004684 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 59374004685 Protein of unknown function (DUF971); Region: DUF971; cl01414 59374004686 DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]; Region: RpoD; COG0568 59374004687 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 59374004688 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 59374004689 DNA binding residues [nucleotide binding] 59374004690 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 59374004691 TPR motif; other site 59374004692 binding surface 59374004693 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 59374004694 binding surface 59374004695 TPR motif; other site 59374004696 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 59374004697 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 59374004698 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 59374004699 peptide chain release factor 1; Validated; Region: prfA; PRK00591 59374004700 RF-1 domain; Region: RF-1; cl02875 59374004701 RF-1 domain; Region: RF-1; cl02875 59374004702 Thymidylate synthase complementing protein; Region: Thy1; cl03630 59374004703 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 59374004704 homodimer interaction site [polypeptide binding]; other site 59374004705 cofactor binding site; other site 59374004706 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 59374004707 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374004708 NAD(P) binding site [chemical binding]; other site 59374004709 active site 59374004710 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 59374004711 dimer interface [polypeptide binding]; other site 59374004712 ADP-ribose binding site [chemical binding]; other site 59374004713 active site 59374004714 nudix motif; other site 59374004715 metal binding site [ion binding]; metal-binding site 59374004716 hypothetical protein, TIGR02147; Region: Fsuc_second 59374004717 Putative catalytic NodB homology domain of gellan lyase and similar proteins; Region: CE4_GLA_like_6s; cd10967 59374004718 putative active site [active] 59374004719 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374004720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374004721 oligomerization interface [polypeptide binding]; other site 59374004722 active site 59374004723 NAD+ binding site [chemical binding]; other site 59374004724 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 59374004725 MatE; Region: MatE; cl10513 59374004726 MatE; Region: MatE; cl10513 59374004727 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 59374004728 phosphopeptide binding site; other site 59374004729 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374004730 metal binding site [ion binding]; metal-binding site 59374004731 active site 59374004732 I-site; other site 59374004733 PA14 domain; Region: PA14; cl08459 59374004734 Sporulation related domain; Region: SPOR; cl10051 59374004735 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 59374004736 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 59374004737 active site 59374004738 HIGH motif; other site 59374004739 nucleotide binding site [chemical binding]; other site 59374004740 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 59374004741 active site 59374004742 KMSKS motif; other site 59374004743 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 59374004744 active site 59374004745 substrate binding site [chemical binding]; other site 59374004746 catalytic site [active] 59374004747 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 59374004748 DNA topoisomerase III; Validated; Region: PRK08173 59374004749 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 59374004750 active site 59374004751 putative interdomain interaction site [polypeptide binding]; other site 59374004752 putative metal-binding site [ion binding]; other site 59374004753 putative nucleotide binding site [chemical binding]; other site 59374004754 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 59374004755 domain I; other site 59374004756 DNA binding groove [nucleotide binding] 59374004757 phosphate binding site [ion binding]; other site 59374004758 domain II; other site 59374004759 domain III; other site 59374004760 nucleotide binding site [chemical binding]; other site 59374004761 catalytic site [active] 59374004762 domain IV; other site 59374004763 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 59374004764 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 59374004765 active site 59374004766 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 59374004767 Middle domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_M; cd10316 59374004768 Planctomycetes uncharacterized domain TIGR03067; Region: Planc_TIGR03067 59374004769 Pectate lyase; Region: Pec_lyase_C; cl01593 59374004770 hypothetical protein, TIGR02147; Region: Fsuc_second 59374004771 Glycosyl hydrolase family 43; Region: GH43_6; cd08985 59374004772 active site 59374004773 Carbohydrate Binding Module family 35 (CBM35), pectate lyase-like; appended mainly to enzymes that bind mannan (Man), xylan, glucuronic acid (GlcA) and possibly glucans; Region: CBM35_pectate_lyase-like; cd04082 59374004774 Ca binding site [ion binding]; other site 59374004775 ligand binding site [chemical binding]; other site 59374004776 Ca binding site (active) [ion binding]; other site 59374004777 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 59374004778 active site 59374004779 catalytic triad [active] 59374004780 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374004781 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 59374004782 Carbohydrate Binding Module family 35 (CBM35), pectate lyase-like; appended mainly to enzymes that bind mannan (Man), xylan, glucuronic acid (GlcA) and possibly glucans; Region: CBM35_pectate_lyase-like; cd04082 59374004783 Ca binding site [ion binding]; other site 59374004784 ligand binding site [chemical binding]; other site 59374004785 Ca binding site (active) [ion binding]; other site 59374004786 Glycosyl hydrolases family 43; Region: Glyco_hydro_43; pfam04616 59374004787 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 59374004788 substrate binding site [chemical binding]; other site 59374004789 active site 59374004790 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 59374004791 substrate binding site [chemical binding]; other site 59374004792 active site 59374004793 Glycosyl hydrolases family 43; Region: Glyco_hydro_43; pfam04616 59374004794 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 59374004795 substrate binding site [chemical binding]; other site 59374004796 active site 59374004797 Carbohydrate Binding Module family 35 (CBM35); appended mainly to enzymes that bind alpha-D-galactose (CBM35-Gal), including glycoside hydrolase (GH) families GH31 and GH43; Region: CBM35_galactosidase-like; cd04081 59374004798 Ca binding site [ion binding]; other site 59374004799 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 59374004800 ligand binding site [chemical binding]; other site 59374004801 metal binding site [ion binding]; metal-binding site 59374004802 hypothetical protein, TIGR02147; Region: Fsuc_second 59374004803 CotH protein; Region: CotH; pfam08757 59374004804 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 59374004805 metal binding site [ion binding]; metal-binding site 59374004806 active site 59374004807 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374004808 hypothetical protein, TIGR02147; Region: Fsuc_second 59374004809 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 59374004810 hypothetical protein, TIGR02147; Region: Fsuc_second 59374004811 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 59374004812 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; cl15292 59374004813 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 59374004814 Pectate lyase; Region: Pec_lyase_C; cl01593 59374004815 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 59374004816 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 59374004817 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 59374004818 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 59374004819 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 59374004820 NAD(P) binding site [chemical binding]; other site 59374004821 homotetramer interface [polypeptide binding]; other site 59374004822 homodimer interface [polypeptide binding]; other site 59374004823 active site 59374004824 Phosphopantetheine attachment site; Region: PP-binding; cl09936 59374004825 ribonuclease III; Reviewed; Region: rnc; PRK00102 59374004826 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 59374004827 dimerization interface [polypeptide binding]; other site 59374004828 active site 59374004829 metal binding site [ion binding]; metal-binding site 59374004830 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 59374004831 dsRNA binding site [nucleotide binding]; other site 59374004832 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 59374004833 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 59374004834 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374004835 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 59374004836 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 59374004837 transmembrane helices; other site 59374004838 hypothetical protein; Provisional; Region: PRK11479 59374004839 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 59374004840 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 59374004841 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 59374004842 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 59374004843 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 59374004844 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 59374004845 Cation efflux family; Region: Cation_efflux; cl00316 59374004846 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 59374004847 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 59374004848 active site 59374004849 catalytic tetrad [active] 59374004850 PA14 domain; Region: PA14; cl08459 59374004851 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA_like; cd07944 59374004852 active site 59374004853 catalytic residues [active] 59374004854 metal binding site [ion binding]; metal-binding site 59374004855 N-terminal Early set domain associated with the catalytic domain of cellulase; Region: E_set_Cellulase_N; cd02850 59374004856 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 59374004857 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374004858 Protein kinase; unclassified specificity; Region: STYKc; smart00221 59374004859 Catalytic domain of Protein Kinases; Region: PKc; cd00180 59374004860 active site 59374004861 ATP binding site [chemical binding]; other site 59374004862 substrate binding site [chemical binding]; other site 59374004863 activation loop (A-loop); other site 59374004864 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 59374004865 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 59374004866 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 59374004867 B12 binding site [chemical binding]; other site 59374004868 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 59374004869 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 59374004870 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374004871 metal binding site [ion binding]; metal-binding site 59374004872 active site 59374004873 I-site; other site 59374004874 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 59374004875 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374004876 Walker A motif; other site 59374004877 ATP binding site [chemical binding]; other site 59374004878 Walker B motif; other site 59374004879 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 59374004880 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 59374004881 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 59374004882 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 59374004883 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 59374004884 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 59374004885 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 59374004886 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 59374004887 active site 59374004888 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 59374004889 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 59374004890 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 59374004891 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 59374004892 active site 59374004893 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 59374004894 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 59374004895 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; cl09156 59374004896 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 59374004897 FeS/SAM binding site; other site 59374004898 Protein of unknown function (DUF3791); Region: DUF3791; pfam12668 59374004899 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 59374004900 Ligand binding site; other site 59374004901 Putative Catalytic site; other site 59374004902 DXD motif; other site 59374004903 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 59374004904 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374004905 Formate-dependent phosphoribosylglycinamide formyltransferase (GAR transformylase) [Nucleotide transport and metabolism]; Region: PurT; COG0027 59374004906 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 59374004907 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 59374004908 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 59374004909 inhibitor-cofactor binding pocket; inhibition site 59374004910 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374004911 catalytic residue [active] 59374004912 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 59374004913 Helix-turn-helix domains; Region: HTH; cl00088 59374004914 Helix-turn-helix domains; Region: HTH; cl00088 59374004915 Domain of unknown function (DUF955); Region: DUF955; cl01076 59374004916 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 59374004917 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 59374004918 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 59374004919 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 59374004920 glycogen/starch synthases, ADP-glucose type; Region: glgA; TIGR02095 59374004921 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 59374004922 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 59374004923 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374004924 Walker A/P-loop; other site 59374004925 ATP binding site [chemical binding]; other site 59374004926 Q-loop/lid; other site 59374004927 ABC transporter signature motif; other site 59374004928 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374004929 ABC transporter signature motif; other site 59374004930 Walker B; other site 59374004931 D-loop; other site 59374004932 H-loop/switch region; other site 59374004933 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 59374004934 EamA-like transporter family; Region: EamA; cl01037 59374004935 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 59374004936 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 59374004937 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 59374004938 CoA-binding site [chemical binding]; other site 59374004939 ATP-binding [chemical binding]; other site 59374004940 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 59374004941 hypothetical protein, TIGR02147; Region: Fsuc_second 59374004942 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 59374004943 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 59374004944 OpgC protein; Region: OpgC_C; cl00792 59374004945 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 59374004946 active site 59374004947 Helix-turn-helix domains; Region: HTH; cl00088 59374004948 Domain of unknown function (DUF955); Region: DUF955; cl01076 59374004949 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 59374004950 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 59374004951 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 59374004952 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 59374004953 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 59374004954 active site 59374004955 dimer interface [polypeptide binding]; other site 59374004956 motif 1; other site 59374004957 motif 2; other site 59374004958 motif 3; other site 59374004959 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 59374004960 anticodon binding site; other site 59374004961 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374004962 metal binding site [ion binding]; metal-binding site 59374004963 active site 59374004964 I-site; other site 59374004965 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 59374004966 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 59374004967 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 59374004968 Rubredoxin; Region: Rubredoxin; pfam00301 59374004969 iron binding site [ion binding]; other site 59374004970 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 59374004971 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 59374004972 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 59374004973 active site 59374004974 catalytic residues [active] 59374004975 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 59374004976 putative deacylase active site [active] 59374004977 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374004978 metal binding site [ion binding]; metal-binding site 59374004979 active site 59374004980 I-site; other site 59374004981 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374004982 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 59374004983 homodimer interface [polypeptide binding]; other site 59374004984 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 59374004985 active site pocket [active] 59374004986 Predicted transcriptional regulator [Transcription]; Region: COG2378 59374004987 Virulence protein [General function prediction only]; Region: COG3943 59374004988 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 59374004989 homodimer interface [polypeptide binding]; other site 59374004990 putative active site [active] 59374004991 catalytic site [active] 59374004992 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 59374004993 putative active site [active] 59374004994 ORF6N domain; Region: ORF6N; pfam10543 59374004995 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 59374004996 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 59374004997 Walker A motif; other site 59374004998 ATP binding site [chemical binding]; other site 59374004999 Walker B motif; other site 59374005000 arginine finger; other site 59374005001 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 59374005002 Walker A motif; other site 59374005003 ATP binding site [chemical binding]; other site 59374005004 Walker B motif; other site 59374005005 arginine finger; other site 59374005006 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 59374005007 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 59374005008 Coenzyme A binding pocket [chemical binding]; other site 59374005009 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 59374005010 catalytic core [active] 59374005011 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 59374005012 NAD binding site [chemical binding]; other site 59374005013 active site 59374005014 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 59374005015 Sodium:solute symporter family; Region: SSF; cl00456 59374005016 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 59374005017 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 59374005018 FeS/SAM binding site; other site 59374005019 HemN C-terminal region; Region: HemN_C; pfam06969 59374005020 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; cl02915 59374005021 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 59374005022 Cl- selectivity filter; other site 59374005023 Cl- binding residues [ion binding]; other site 59374005024 pore gating glutamate residue; other site 59374005025 dimer interface [polypeptide binding]; other site 59374005026 CotH protein; Region: CotH; pfam08757 59374005027 ACT domain-containing protein [General function prediction only]; Region: COG4747 59374005028 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 59374005029 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 59374005030 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 59374005031 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 59374005032 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 59374005033 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 59374005034 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 59374005035 Surface antigen; Region: Bac_surface_Ag; cl03097 59374005036 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 59374005037 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 59374005038 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374005039 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374005040 hypothetical protein; Provisional; Region: PRK13795 59374005041 4Fe-4S binding domain; Region: Fer4; cl02805 59374005042 hypothetical protein, TIGR02147; Region: Fsuc_second 59374005043 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 59374005044 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; cl00365 59374005045 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 59374005046 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 59374005047 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 59374005048 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 59374005049 putative dimer interface [polypeptide binding]; other site 59374005050 [2Fe-2S] cluster binding site [ion binding]; other site 59374005051 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 59374005052 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 59374005053 SLBB domain; Region: SLBB; pfam10531 59374005054 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 59374005055 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 59374005056 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 59374005057 catalytic loop [active] 59374005058 iron binding site [ion binding]; other site 59374005059 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 59374005060 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 59374005061 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 59374005062 NADH dehydrogenase; Region: NADHdh; cl00469 59374005063 NADH dehydrogenase; Region: NADHdh; cl00469 59374005064 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 59374005065 4Fe-4S binding domain; Region: Fer4; cl02805 59374005066 4Fe-4S binding domain; Region: Fer4; cl02805 59374005067 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 59374005068 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 59374005069 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 59374005070 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 59374005071 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 59374005072 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 59374005073 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 59374005074 proton-translocating NADH-quinone oxidoreductase, chain N; Region: NDH_I_N; TIGR01770 59374005075 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 59374005076 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 59374005077 homotrimer interaction site [polypeptide binding]; other site 59374005078 zinc binding site [ion binding]; other site 59374005079 CDP-binding sites; other site 59374005080 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 59374005081 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 59374005082 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 59374005083 PhoU domain; Region: PhoU; pfam01895 59374005084 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374005085 DNA repair helicase rad25; Region: rad25; TIGR00603 59374005086 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 59374005087 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374005088 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374005089 ATP binding site [chemical binding]; other site 59374005090 putative Mg++ binding site [ion binding]; other site 59374005091 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 59374005092 nucleotide binding region [chemical binding]; other site 59374005093 ATP-binding site [chemical binding]; other site 59374005094 Rhomboid family; Region: Rhomboid; cl11446 59374005095 glutathione-disulfide reductase, plant; Region: gluta_reduc_2; TIGR01424 59374005096 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 59374005097 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 59374005098 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 59374005099 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 59374005100 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 59374005101 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 59374005102 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374005103 metal binding site [ion binding]; metal-binding site 59374005104 active site 59374005105 I-site; other site 59374005106 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 59374005107 Sodium:solute symporter family; Region: SSF; cl00456 59374005108 Protein of unknown function (DUF541); Region: SIMPL; cl01077 59374005109 Protein of unknown function (DUF541); Region: SIMPL; cl01077 59374005110 Protein of unknown function (DUF541); Region: SIMPL; cl01077 59374005111 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 59374005112 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 59374005113 ATP cone domain; Region: ATP-cone; pfam03477 59374005114 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 59374005115 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 59374005116 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 59374005117 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 59374005118 FeS/SAM binding site; other site 59374005119 Protein of unknown function (DUF511); Region: DUF511; cl01114 59374005120 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 59374005121 active site 59374005122 catalytic triad [active] 59374005123 oxyanion hole [active] 59374005124 hypothetical protein, TIGR02147; Region: Fsuc_second 59374005125 Middle domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_M; cd10316 59374005126 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 59374005127 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 59374005128 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374005129 Carbon starvation protein CstA; Region: CstA; cl00856 59374005130 Quinolinate synthetase A protein; Region: NadA; cl00420 59374005131 bis(5'-nucleosyl)-tetraphosphatase PrpE; Provisional; Region: PRK13625 59374005132 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 59374005133 active site 59374005134 metal binding site [ion binding]; metal-binding site 59374005135 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 59374005136 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 59374005137 RNA binding surface [nucleotide binding]; other site 59374005138 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 59374005139 active site 59374005140 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 59374005141 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 59374005142 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 59374005143 active site 59374005144 oligomerization interface [polypeptide binding]; other site 59374005145 metal binding site [ion binding]; metal-binding site 59374005146 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 59374005147 Recombination protein O N terminal; Region: RecO_N; pfam11967 59374005148 Recombination protein O C terminal; Region: RecO_C; pfam02565 59374005149 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 59374005150 nucleotide binding site/active site [active] 59374005151 HIT family signature motif; other site 59374005152 catalytic residue [active] 59374005153 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 59374005154 putative acyl-acceptor binding pocket; other site 59374005155 Cache domain; Region: Cache_1; pfam02743 59374005156 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 59374005157 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 59374005158 DNA helicase, putative; Region: TIGR00376 59374005159 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374005160 Walker A motif; other site 59374005161 ATP binding site [chemical binding]; other site 59374005162 DNA helicase, putative; Region: TIGR00376 59374005163 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 59374005164 active site 59374005165 ATP binding site [chemical binding]; other site 59374005166 substrate binding site [chemical binding]; other site 59374005167 Uncharacterized protein with protein kinase and helix-hairpin-helix DNA-binding domains [General function prediction only]; Region: COG4248 59374005168 activation loop (A-loop); other site 59374005169 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 59374005170 active site 59374005171 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 59374005172 metal ion-dependent adhesion site (MIDAS); other site 59374005173 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 59374005174 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 59374005175 Walker A motif; other site 59374005176 ATP binding site [chemical binding]; other site 59374005177 Walker B motif; other site 59374005178 arginine finger; other site 59374005179 Flavin Reductases; Region: FlaRed; cl00801 59374005180 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 59374005181 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 59374005182 motif II; other site 59374005183 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 59374005184 Glycosyl hydrolases family 11; Region: Glyco_hydro_11; pfam00457 59374005185 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374005186 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 59374005187 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 59374005188 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 59374005189 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 59374005190 RNA binding site [nucleotide binding]; other site 59374005191 acetyl-CoA decarbonylase/synthase complex subunit alpha; Validated; Region: PRK00941 59374005192 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 59374005193 nucleotide binding site [chemical binding]; other site 59374005194 N-acetyl-L-glutamate binding site [chemical binding]; other site 59374005195 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 59374005196 acetylornithine aminotransferase; Provisional; Region: PRK02627 59374005197 inhibitor-cofactor binding pocket; inhibition site 59374005198 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374005199 catalytic residue [active] 59374005200 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374005201 metal binding site [ion binding]; metal-binding site 59374005202 active site 59374005203 I-site; other site 59374005204 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 59374005205 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 59374005206 DNA binding site [nucleotide binding] 59374005207 Int/Topo IB signature motif; other site 59374005208 active site 59374005209 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 59374005210 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 59374005211 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 59374005212 FeS/SAM binding site; other site 59374005213 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 59374005214 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 59374005215 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 59374005216 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 59374005217 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 59374005218 Walker A/P-loop; other site 59374005219 ATP binding site [chemical binding]; other site 59374005220 Q-loop/lid; other site 59374005221 ABC transporter signature motif; other site 59374005222 Walker B; other site 59374005223 D-loop; other site 59374005224 H-loop/switch region; other site 59374005225 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 59374005226 Protein of unknown function (DUF330); Region: DUF330; cl01135 59374005227 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 59374005228 mce related protein; Region: MCE; cl15431 59374005229 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 59374005230 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374005231 Walker A/P-loop; other site 59374005232 ATP binding site [chemical binding]; other site 59374005233 Q-loop/lid; other site 59374005234 ABC transporter signature motif; other site 59374005235 Walker B; other site 59374005236 D-loop; other site 59374005237 H-loop/switch region; other site 59374005238 Domain of unknown function DUF140; Region: DUF140; cl00510 59374005239 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 59374005240 TRAM domain; Region: TRAM; cl01282 59374005241 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 59374005242 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 59374005243 translocation protein TolB; Provisional; Region: tolB; PRK01742 59374005244 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; cl15292 59374005245 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 59374005246 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 59374005247 putative FMN binding site [chemical binding]; other site 59374005248 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 59374005249 putative FMN binding site [chemical binding]; other site 59374005250 LrgB-like family; Region: LrgB; cl00596 59374005251 LrgA family; Region: LrgA; cl00608 59374005252 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 59374005253 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 59374005254 putative active site [active] 59374005255 substrate binding site [chemical binding]; other site 59374005256 putative cosubstrate binding site; other site 59374005257 catalytic site [active] 59374005258 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 59374005259 substrate binding site [chemical binding]; other site 59374005260 16S rRNA methyltransferase B; Provisional; Region: PRK14902 59374005261 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 59374005262 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 59374005263 S-adenosylmethionine binding site [chemical binding]; other site 59374005264 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 59374005265 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 59374005266 minor groove reading motif; other site 59374005267 helix-hairpin-helix signature motif; other site 59374005268 substrate binding pocket [chemical binding]; other site 59374005269 active site 59374005270 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 59374005271 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 59374005272 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 59374005273 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 59374005274 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an...; Region: HisA_HisF; cd04723 59374005275 active site 59374005276 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374005277 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 59374005278 NAD(P) binding site [chemical binding]; other site 59374005279 active site 59374005280 shikimate kinase; Reviewed; Region: aroK; PRK00131 59374005281 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 59374005282 ADP binding site [chemical binding]; other site 59374005283 magnesium binding site [ion binding]; other site 59374005284 putative shikimate binding site; other site 59374005285 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 59374005286 active site 59374005287 dimer interface [polypeptide binding]; other site 59374005288 metal binding site [ion binding]; metal-binding site 59374005289 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 59374005290 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 59374005291 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 59374005292 shikimate binding site; other site 59374005293 NAD(P) binding site [chemical binding]; other site 59374005294 ribosome-associated GTPase EngA; Region: GTPase_EngA; TIGR03594 59374005295 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 59374005296 G1 box; other site 59374005297 GTP/Mg2+ binding site [chemical binding]; other site 59374005298 Switch I region; other site 59374005299 G2 box; other site 59374005300 Switch II region; other site 59374005301 G3 box; other site 59374005302 G4 box; other site 59374005303 G5 box; other site 59374005304 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 59374005305 G1 box; other site 59374005306 GTP/Mg2+ binding site [chemical binding]; other site 59374005307 Switch I region; other site 59374005308 G2 box; other site 59374005309 G3 box; other site 59374005310 Switch II region; other site 59374005311 G4 box; other site 59374005312 G5 box; other site 59374005313 Domain of unknown function (DUF205); Region: DUF205; cl00410 59374005314 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 59374005315 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374005316 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 59374005317 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374005318 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 59374005319 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 59374005320 Bacterial sugar transferase; Region: Bac_transf; cl00939 59374005321 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 59374005322 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 59374005323 homoserine dehydrogenase; Provisional; Region: PRK06349 59374005324 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374005325 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 59374005326 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 59374005327 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 59374005328 Bacterial sugar transferase; Region: Bac_transf; cl00939 59374005329 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 59374005330 nicotinate-nucleotide pyrophosphorylase; Region: nadC; TIGR00078 59374005331 dimerization interface [polypeptide binding]; other site 59374005332 active site 59374005333 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 59374005334 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 59374005335 NAD binding site [chemical binding]; other site 59374005336 putative substrate binding site 2 [chemical binding]; other site 59374005337 putative substrate binding site 1 [chemical binding]; other site 59374005338 active site 59374005339 Helix-turn-helix domain; Region: HTH_18; pfam12833 59374005340 Domain of unknown function (DUF477); Region: DUF477; cl01535 59374005341 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 59374005342 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 59374005343 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 59374005344 putative active site [active] 59374005345 catalytic triad [active] 59374005346 putative dimer interface [polypeptide binding]; other site 59374005347 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 59374005348 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 59374005349 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 59374005350 putative active site [active] 59374005351 putative metal binding site [ion binding]; other site 59374005352 hypothetical protein, TIGR02147; Region: Fsuc_second 59374005353 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 59374005354 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 59374005355 catalytic residues [active] 59374005356 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 59374005357 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 59374005358 substrate binding site [chemical binding]; other site 59374005359 glutamase interaction surface [polypeptide binding]; other site 59374005360 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 59374005361 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 59374005362 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 59374005363 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 59374005364 Walker A motif; other site 59374005365 ATP binding site [chemical binding]; other site 59374005366 Walker B motif; other site 59374005367 arginine finger; other site 59374005368 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 59374005369 Walker A motif; other site 59374005370 ATP binding site [chemical binding]; other site 59374005371 Walker B motif; other site 59374005372 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 59374005373 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 59374005374 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 59374005375 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374005376 homodimer interface [polypeptide binding]; other site 59374005377 catalytic residue [active] 59374005378 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 59374005379 active site 59374005380 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 59374005381 Competence protein; Region: Competence; cl00471 59374005382 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 59374005383 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 59374005384 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 59374005385 active site 59374005386 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 59374005387 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 59374005388 DNA binding site [nucleotide binding] 59374005389 Int/Topo IB signature motif; other site 59374005390 active site 59374005391 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 59374005392 anti sigma factor interaction site; other site 59374005393 regulatory phosphorylation site [posttranslational modification]; other site 59374005394 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 59374005395 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 59374005396 dimer interface [polypeptide binding]; other site 59374005397 ADP-ribose binding site [chemical binding]; other site 59374005398 active site 59374005399 nudix motif; other site 59374005400 metal binding site [ion binding]; metal-binding site 59374005401 PA14 domain; Region: PA14; cl08459 59374005402 ribosome maturation protein RimP; Reviewed; Region: PRK00092 59374005403 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 59374005404 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 59374005405 Sm1 motif; other site 59374005406 D3 - B interaction site; other site 59374005407 D1 - D2 interaction site; other site 59374005408 Hfq - Hfq interaction site; other site 59374005409 RNA binding pocket [nucleotide binding]; other site 59374005410 Sm2 motif; other site 59374005411 transcription termination factor NusA; Region: NusA; TIGR01953 59374005412 NusA N-terminal domain; Region: NusA_N; pfam08529 59374005413 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 59374005414 RNA binding site [nucleotide binding]; other site 59374005415 homodimer interface [polypeptide binding]; other site 59374005416 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 59374005417 G-X-X-G motif; other site 59374005418 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 59374005419 G-X-X-G motif; other site 59374005420 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 59374005421 translation initiation factor IF-2; Region: IF-2; TIGR00487 59374005422 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 59374005423 G1 box; other site 59374005424 putative GEF interaction site [polypeptide binding]; other site 59374005425 GTP/Mg2+ binding site [chemical binding]; other site 59374005426 Switch I region; other site 59374005427 G2 box; other site 59374005428 G3 box; other site 59374005429 Switch II region; other site 59374005430 G4 box; other site 59374005431 G5 box; other site 59374005432 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 59374005433 Translation-initiation factor 2; Region: IF-2; pfam11987 59374005434 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 59374005435 Ribosome-binding factor A; Region: RBFA; cl00542 59374005436 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 59374005437 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 59374005438 RNA binding site [nucleotide binding]; other site 59374005439 active site 59374005440 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 59374005441 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 59374005442 active site 59374005443 Riboflavin kinase; Region: Flavokinase; cl03312 59374005444 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374005445 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 59374005446 SWIM zinc finger; Region: SWIM; cl15408 59374005447 SNF2 Helicase protein; Region: DUF3670; pfam12419 59374005448 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 59374005449 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 59374005450 ATP binding site [chemical binding]; other site 59374005451 putative Mg++ binding site [ion binding]; other site 59374005452 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 59374005453 nucleotide binding region [chemical binding]; other site 59374005454 ATP-binding site [chemical binding]; other site 59374005455 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 59374005456 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 59374005457 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374005458 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 59374005459 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 59374005460 UDP-apiose/xylose synthase; Region: PLN02427 59374005461 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374005462 NAD(P) binding site [chemical binding]; other site 59374005463 active site 59374005464 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 59374005465 Ligand binding site; other site 59374005466 Putative Catalytic site; other site 59374005467 DXD motif; other site 59374005468 MoxR-like ATPases [General function prediction only]; Region: COG0714 59374005469 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374005470 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 59374005471 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 59374005472 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 59374005473 Domain of unknown function (DUF303); Region: DUF303; pfam03629 59374005474 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 59374005475 homodimer interaction site [polypeptide binding]; other site 59374005476 cofactor binding site; other site 59374005477 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; cl01922 59374005478 Asp-box motif; other site 59374005479 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 59374005480 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374005481 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 59374005482 catalytic core [active] 59374005483 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 59374005484 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 59374005485 NADP binding site [chemical binding]; other site 59374005486 active site 59374005487 putative substrate binding site [chemical binding]; other site 59374005488 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 59374005489 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 59374005490 FeS/SAM binding site; other site 59374005491 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 59374005492 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 59374005493 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 59374005494 Walker A/P-loop; other site 59374005495 ATP binding site [chemical binding]; other site 59374005496 Q-loop/lid; other site 59374005497 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 59374005498 ABC transporter signature motif; other site 59374005499 Walker B; other site 59374005500 D-loop; other site 59374005501 H-loop/switch region; other site 59374005502 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 59374005503 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 59374005504 Methanothermobacter thermautotrophicus Mth212-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Mth212-like_AP-endo; cd09085 59374005505 active site 59374005506 phosphate binding site A [ion binding]; other site 59374005507 putative catalytic site [active] 59374005508 DNA binding site [nucleotide binding] 59374005509 metal binding site A [ion binding]; metal-binding site 59374005510 putative AP binding site [nucleotide binding]; other site 59374005511 putative metal binding site B [ion binding]; other site 59374005512 phosphate binding site B [ion binding]; other site 59374005513 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 59374005514 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 59374005515 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 59374005516 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 59374005517 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374005518 homodimer interface [polypeptide binding]; other site 59374005519 catalytic residue [active] 59374005520 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374005521 metal binding site [ion binding]; metal-binding site 59374005522 active site 59374005523 I-site; other site 59374005524 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374005525 metal binding site [ion binding]; metal-binding site 59374005526 active site 59374005527 I-site; other site 59374005528 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 59374005529 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 59374005530 generic binding surface II; other site 59374005531 generic binding surface I; other site 59374005532 Phd_YefM; Region: PhdYeFM; cl09153 59374005533 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 59374005534 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 59374005535 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 59374005536 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 59374005537 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 59374005538 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 59374005539 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 59374005540 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 59374005541 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 59374005542 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 59374005543 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 59374005544 4Fe-4S binding domain; Region: Fer4; cl02805 59374005545 NADH dehydrogenase; Region: NADHdh; cl00469 59374005546 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 59374005547 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 59374005548 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 59374005549 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; cl00365 59374005550 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 59374005551 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 59374005552 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 59374005553 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 59374005554 synthetase active site [active] 59374005555 NTP binding site [chemical binding]; other site 59374005556 metal binding site [ion binding]; metal-binding site 59374005557 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 59374005558 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; cl01750 59374005559 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 59374005560 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 59374005561 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 59374005562 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 59374005563 dimerization interface [polypeptide binding]; other site 59374005564 domain crossover interface; other site 59374005565 redox-dependent activation switch; other site 59374005566 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 59374005567 conserved cys residue [active] 59374005568 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 59374005569 putative ABC transporter; Region: ycf24; CHL00085 59374005570 DNA topoisomerase III; Provisional; Region: PRK07726 59374005571 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 59374005572 active site 59374005573 putative metal-binding site [ion binding]; other site 59374005574 putative interdomain interaction site [polypeptide binding]; other site 59374005575 putative nucleotide binding site [chemical binding]; other site 59374005576 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 59374005577 domain I; other site 59374005578 DNA binding groove [nucleotide binding] 59374005579 phosphate binding site [ion binding]; other site 59374005580 domain II; other site 59374005581 domain III; other site 59374005582 nucleotide binding site [chemical binding]; other site 59374005583 catalytic site [active] 59374005584 domain IV; other site 59374005585 DNA topoisomerase III; Validated; Region: PRK08173 59374005586 DNA topoisomerase III; Validated; Region: PRK08173 59374005587 2-isopropylmalate synthase; Validated; Region: PRK00915 59374005588 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 59374005589 active site 59374005590 catalytic residues [active] 59374005591 metal binding site [ion binding]; metal-binding site 59374005592 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 59374005593 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374005594 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374005595 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 59374005596 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 59374005597 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374005598 homodimer interface [polypeptide binding]; other site 59374005599 catalytic residue [active] 59374005600 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 59374005601 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374005602 Pectate lyase; Region: Pec_lyase_C; cl01593 59374005603 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374005604 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 59374005605 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; cl15292 59374005606 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; cl15292 59374005607 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374005608 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 59374005609 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 59374005610 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 59374005611 Preprotein translocase SecG subunit; Region: SecG; cl09123 59374005612 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 59374005613 substrate binding site [chemical binding]; other site 59374005614 dimer interface [polypeptide binding]; other site 59374005615 catalytic triad [active] 59374005616 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 59374005617 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 59374005618 recombinase A; Provisional; Region: recA; PRK09354 59374005619 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 59374005620 hexamer interface [polypeptide binding]; other site 59374005621 Walker A motif; other site 59374005622 ATP binding site [chemical binding]; other site 59374005623 Walker B motif; other site 59374005624 Competence-damaged protein; Region: CinA; cl00666 59374005625 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 59374005626 catalytic core [active] 59374005627 Cadherin repeat domain; Cadherins are glycoproteins involved in Ca2+-mediated cell-cell adhesion; these domains occur as repeats in the extracellular regions which are thought to mediate cell-cell contact when bound to calcium; plays a role in cell fate; Region: CA; cl02468 59374005628 Ca2+ binding site [ion binding]; other site 59374005629 Cadherin repeat domain; Cadherins are glycoproteins involved in Ca2+-mediated cell-cell adhesion; these domains occur as repeats in the extracellular regions which are thought to mediate cell-cell contact when bound to calcium; plays a role in cell fate; Region: CA; cd00031 59374005630 Ca2+ binding site [ion binding]; other site 59374005631 Cadherin repeat domain; Cadherins are glycoproteins involved in Ca2+-mediated cell-cell adhesion; these domains occur as repeats in the extracellular regions which are thought to mediate cell-cell contact when bound to calcium; plays a role in cell fate; Region: CA; cd00031 59374005632 Ca2+ binding site [ion binding]; other site 59374005633 flagellin; Validated; Region: PRK08026 59374005634 Cadherin repeat domain; Cadherins are glycoproteins involved in Ca2+-mediated cell-cell adhesion; these domains occur as repeats in the extracellular regions which are thought to mediate cell-cell contact when bound to calcium; plays a role in cell fate; Region: CA; cl02468 59374005635 Ca2+ binding site [ion binding]; other site 59374005636 Cadherin repeat domain; Cadherins are glycoproteins involved in Ca2+-mediated cell-cell adhesion; these domains occur as repeats in the extracellular regions which are thought to mediate cell-cell contact when bound to calcium; plays a role in cell fate; Region: CA; cl02468 59374005637 Ca2+ binding site [ion binding]; other site 59374005638 Cadherin repeat domain; Cadherins are glycoproteins involved in Ca2+-mediated cell-cell adhesion; these domains occur as repeats in the extracellular regions which are thought to mediate cell-cell contact when bound to calcium; plays a role in cell fate; Region: CA; cl02468 59374005639 Ca2+ binding site [ion binding]; other site 59374005640 Cadherin repeat domain; Cadherins are glycoproteins involved in Ca2+-mediated cell-cell adhesion; these domains occur as repeats in the extracellular regions which are thought to mediate cell-cell contact when bound to calcium; plays a role in cell fate; Region: CA; cd00031 59374005641 Ca2+ binding site [ion binding]; other site 59374005642 Cadherin repeat domain; Cadherins are glycoproteins involved in Ca2+-mediated cell-cell adhesion; these domains occur as repeats in the extracellular regions which are thought to mediate cell-cell contact when bound to calcium; plays a role in cell fate; Region: CA; cd00031 59374005643 Ca2+ binding site [ion binding]; other site 59374005644 Cadherin repeat domain; Cadherins are glycoproteins involved in Ca2+-mediated cell-cell adhesion; these domains occur as repeats in the extracellular regions which are thought to mediate cell-cell contact when bound to calcium; plays a role in cell fate; Region: CA; cd00031 59374005645 Ca2+ binding site [ion binding]; other site 59374005646 Cadherin repeat domain; Cadherins are glycoproteins involved in Ca2+-mediated cell-cell adhesion; these domains occur as repeats in the extracellular regions which are thought to mediate cell-cell contact when bound to calcium; plays a role in cell fate; Region: CA; cd00031 59374005647 Ca2+ binding site [ion binding]; other site 59374005648 Cadherin repeat domain; Cadherins are glycoproteins involved in Ca2+-mediated cell-cell adhesion; these domains occur as repeats in the extracellular regions which are thought to mediate cell-cell contact when bound to calcium; plays a role in cell fate; Region: CA; cd00031 59374005649 Ca2+ binding site [ion binding]; other site 59374005650 translation initiation factor Sui1; Validated; Region: PRK06824 59374005651 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation. This fold, which includes two...; Region: SUI1_eIF1; cd00474 59374005652 Predicted RNA interaction site [nucleotide binding]; other site 59374005653 putative binding site; other site 59374005654 Mutations affecting start-site selection; other site 59374005655 endonuclease IV; Provisional; Region: PRK01060 59374005656 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 59374005657 AP (apurinic/apyrimidinic) site pocket; other site 59374005658 DNA interaction; other site 59374005659 Metal-binding active site; metal-binding site 59374005660 SigmaW regulon antibacterial; Region: YdfA_immunity; cl12057 59374005661 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_like; cd07021 59374005662 active site residues [active] 59374005663 dimer interface [polypeptide binding]; other site 59374005664 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 59374005665 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 59374005666 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 59374005667 dimer interface [polypeptide binding]; other site 59374005668 phosphorylation site [posttranslational modification] 59374005669 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 59374005670 ATP binding site [chemical binding]; other site 59374005671 Mg2+ binding site [ion binding]; other site 59374005672 G-X-G motif; other site 59374005673 Response regulator receiver domain; Region: Response_reg; pfam00072 59374005674 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 59374005675 active site 59374005676 phosphorylation site [posttranslational modification] 59374005677 intermolecular recognition site; other site 59374005678 dimerization interface [polypeptide binding]; other site 59374005679 Response regulator receiver domain; Region: Response_reg; pfam00072 59374005680 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 59374005681 active site 59374005682 phosphorylation site [posttranslational modification] 59374005683 intermolecular recognition site; other site 59374005684 dimerization interface [polypeptide binding]; other site 59374005685 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 59374005686 16S/18S rRNA binding site [nucleotide binding]; other site 59374005687 S13e-L30e interaction site [polypeptide binding]; other site 59374005688 25S rRNA binding site [nucleotide binding]; other site 59374005689 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 59374005690 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 59374005691 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 59374005692 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 59374005693 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 59374005694 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 59374005695 putative nucleic acid binding region [nucleotide binding]; other site 59374005696 G-X-X-G motif; other site 59374005697 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 59374005698 RNA binding site [nucleotide binding]; other site 59374005699 domain interface; other site 59374005700 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 59374005701 Zn2+ binding site [ion binding]; other site 59374005702 Mg2+ binding site [ion binding]; other site 59374005703 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 59374005704 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 59374005705 Zn2+ binding site [ion binding]; other site 59374005706 Mg2+ binding site [ion binding]; other site 59374005707 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Provisional; Region: PRK02048 59374005708 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694; cl15446 59374005709 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694; cl15446 59374005710 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 59374005711 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374005712 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 59374005713 L-serine binding site [chemical binding]; other site 59374005714 ACT domain interface; other site 59374005715 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 59374005716 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 59374005717 seryl-tRNA synthetase; Provisional; Region: PRK05431 59374005718 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 59374005719 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 59374005720 dimer interface [polypeptide binding]; other site 59374005721 active site 59374005722 motif 1; other site 59374005723 motif 2; other site 59374005724 motif 3; other site 59374005725 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 59374005726 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 59374005727 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 59374005728 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 59374005729 Stage II sporulation protein; Region: SpoIID; pfam08486 59374005730 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 59374005731 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 59374005732 active site 59374005733 catalytic residues [active] 59374005734 metal binding site [ion binding]; metal-binding site 59374005735 Preprotein translocase subunit; Region: YajC; cl00806 59374005736 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 59374005737 ligand binding site [chemical binding]; other site 59374005738 flexible hinge region; other site 59374005739 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 59374005740 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 59374005741 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 59374005742 16S rRNA processing protein RimM; Region: 16S_RimM; TIGR02273 59374005743 RimM N-terminal domain; Region: RimM; pfam01782 59374005744 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 59374005745 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 59374005746 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374005747 metal binding site [ion binding]; metal-binding site 59374005748 active site 59374005749 I-site; other site 59374005750 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 59374005751 signal recognition particle protein; Provisional; Region: PRK10867 59374005752 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 59374005753 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 59374005754 P loop; other site 59374005755 GTP binding site [chemical binding]; other site 59374005756 Signal peptide binding domain; Region: SRP_SPB; pfam02978 59374005757 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 59374005758 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 59374005759 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 59374005760 hypothetical protein; Provisional; Region: PRK08912 59374005761 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 59374005762 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374005763 homodimer interface [polypeptide binding]; other site 59374005764 catalytic residue [active] 59374005765 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 59374005766 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 59374005767 Dynein light chain type 1; Region: Dynein_light; cl03131 59374005768 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 59374005769 MatE; Region: MatE; cl10513 59374005770 MatE; Region: MatE; cl10513 59374005771 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 59374005772 active site 59374005773 catalytic residues [active] 59374005774 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 59374005775 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 59374005776 Walker A motif; other site 59374005777 ATP binding site [chemical binding]; other site 59374005778 Walker B motif; other site 59374005779 arginine finger; other site 59374005780 Helix-turn-helix domains; Region: HTH; cl00088 59374005781 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 59374005782 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374005783 transcription termination factor Rho; Provisional; Region: rho; PRK09376 59374005784 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 59374005785 RNA binding site [nucleotide binding]; other site 59374005786 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374005787 Walker A motif; other site 59374005788 ATP binding site [chemical binding]; other site 59374005789 Walker B motif; other site 59374005790 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 59374005791 catalytic center binding site [active] 59374005792 ATP binding site [chemical binding]; other site 59374005793 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 59374005794 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 59374005795 Substrate-binding site [chemical binding]; other site 59374005796 Substrate specificity [chemical binding]; other site 59374005797 pantoate--beta-alanine ligase; Reviewed; Region: panC; PRK00380 59374005798 Pantoate-beta-alanine ligase; Region: PanC; cd00560 59374005799 active site 59374005800 ATP-binding site [chemical binding]; other site 59374005801 pantoate-binding site; other site 59374005802 HXXH motif; other site 59374005803 CHASE2 domain; Region: CHASE2; cl01732 59374005804 CHASE2 domain; Region: CHASE2; cl01732 59374005805 cyclase homology domain; Region: CHD; cd07302 59374005806 nucleotidyl binding site; other site 59374005807 metal binding site [ion binding]; metal-binding site 59374005808 dimer interface [polypeptide binding]; other site 59374005809 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374005810 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 59374005811 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 59374005812 AMP-binding enzyme; Region: AMP-binding; pfam00501 59374005813 peptide synthase; Validated; Region: PRK05691 59374005814 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 59374005815 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 59374005816 anti sigma factor interaction site; other site 59374005817 regulatory phosphorylation site [posttranslational modification]; other site 59374005818 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 59374005819 MatE; Region: MatE; cl10513 59374005820 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 59374005821 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 59374005822 4-diphosphocytidyl-2C-methyl-D-erythritol 2-phosphate synthase [Lipid metabolism]; Region: IspE; COG1947 59374005823 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 59374005824 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 59374005825 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 59374005826 5S rRNA interface [nucleotide binding]; other site 59374005827 CTC domain interface [polypeptide binding]; other site 59374005828 L16 interface [polypeptide binding]; other site 59374005829 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 59374005830 putative active site [active] 59374005831 catalytic residue [active] 59374005832 Glycosyl hydrolases family 11; Region: Glyco_hydro_11; pfam00457 59374005833 Domain of unknown function (DUF955); Region: DUF955; cl01076 59374005834 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 59374005835 non-specific DNA binding site [nucleotide binding]; other site 59374005836 salt bridge; other site 59374005837 sequence-specific DNA binding site [nucleotide binding]; other site 59374005838 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 59374005839 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 59374005840 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 59374005841 ATP binding site [chemical binding]; other site 59374005842 putative Mg++ binding site [ion binding]; other site 59374005843 T5orf172 domain; Region: T5orf172; cl11176 59374005844 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 59374005845 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 59374005846 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 59374005847 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 59374005848 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 59374005849 active site 59374005850 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 59374005851 Endoglucanase C-terminal domain/subunit and related proteins [Carbohydrate transport and metabolism]; Region: COG4305 59374005852 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 59374005853 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 59374005854 Cation efflux family; Region: Cation_efflux; cl00316 59374005855 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 59374005856 ligand binding site [chemical binding]; other site 59374005857 active site 59374005858 UGI interface [polypeptide binding]; other site 59374005859 catalytic site [active] 59374005860 Glycosyl hydrolase family 53; Region: Glyco_hydro_53; cl06672 59374005861 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; cl15691 59374005862 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 59374005863 Glyco_18 domain; Region: Glyco_18; smart00636 59374005864 active site 59374005865 excinuclease ABC, A subunit; Region: uvra; TIGR00630 59374005866 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374005867 Walker A/P-loop; other site 59374005868 ATP binding site [chemical binding]; other site 59374005869 Q-loop/lid; other site 59374005870 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 59374005871 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374005872 ABC transporter signature motif; other site 59374005873 Walker B; other site 59374005874 D-loop; other site 59374005875 H-loop/switch region; other site 59374005876 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374005877 Walker A/P-loop; other site 59374005878 ATP binding site [chemical binding]; other site 59374005879 Q-loop/lid; other site 59374005880 ABC transporter signature motif; other site 59374005881 Walker B; other site 59374005882 D-loop; other site 59374005883 H-loop/switch region; other site 59374005884 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374005885 Uncharacterized phage-associated protein [Function unknown]; Region: GepA; COG3600 59374005886 PA14 domain; Region: PA14; cl08459 59374005887 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374005888 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374005889 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374005890 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374005891 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 59374005892 Rhamnogalacturonan lyase of the polysaccharide lyase family 11; Region: RGL11; cd10318 59374005893 metal binding site [ion binding]; metal-binding site 59374005894 active site 59374005895 Carbohydrate Binding Module family 35 (CBM35), pectate lyase-like; appended mainly to enzymes that bind mannan (Man), xylan, glucuronic acid (GlcA) and possibly glucans; Region: CBM35_pectate_lyase-like; cd04082 59374005896 Ca binding site [ion binding]; other site 59374005897 ligand binding site [chemical binding]; other site 59374005898 Ca binding site (active) [ion binding]; other site 59374005899 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 59374005900 active site 59374005901 catalytic triad [active] 59374005902 oxyanion hole [active] 59374005903 Carbohydrate Binding Module family 35 (CBM35), pectate lyase-like; appended mainly to enzymes that bind mannan (Man), xylan, glucuronic acid (GlcA) and possibly glucans; Region: CBM35_pectate_lyase-like; cd04082 59374005904 Ca binding site [ion binding]; other site 59374005905 ligand binding site [chemical binding]; other site 59374005906 Ca binding site (active) [ion binding]; other site 59374005907 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 59374005908 active site 59374005909 catalytic triad [active] 59374005910 Carbohydrate Binding Module family 35 (CBM35), pectate lyase-like; appended mainly to enzymes that bind mannan (Man), xylan, glucuronic acid (GlcA) and possibly glucans; Region: CBM35_pectate_lyase-like; cd04082 59374005911 Ca binding site [ion binding]; other site 59374005912 ligand binding site [chemical binding]; other site 59374005913 Ca binding site (active) [ion binding]; other site 59374005914 hypothetical protein, TIGR02147; Region: Fsuc_second 59374005915 Pectate lyase; Region: Pec_lyase_C; cl01593 59374005916 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 59374005917 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 59374005918 dimer interface [polypeptide binding]; other site 59374005919 glycine-pyridoxal phosphate binding site [chemical binding]; other site 59374005920 active site 59374005921 folate binding site [chemical binding]; other site 59374005922 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374005923 PA14 domain; Region: PA14; cl08459 59374005924 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 59374005925 Filamin/ABP280 repeat; Region: Filamin; cl02665 59374005926 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374005927 putative metal binding site [ion binding]; other site 59374005928 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 59374005929 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 59374005930 Walker A/P-loop; other site 59374005931 ATP binding site [chemical binding]; other site 59374005932 Q-loop/lid; other site 59374005933 ABC transporter signature motif; other site 59374005934 Walker B; other site 59374005935 D-loop; other site 59374005936 H-loop/switch region; other site 59374005937 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 59374005938 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 59374005939 Surface antigen; Region: Bac_surface_Ag; cl03097 59374005940 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 59374005941 PPIC-type PPIASE domain; Region: Rotamase; cl08278 59374005942 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 59374005943 binding surface 59374005944 TPR motif; other site 59374005945 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 59374005946 active site 59374005947 multimer interface [polypeptide binding]; other site 59374005948 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 59374005949 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 59374005950 putative Iron-sulfur protein interface [polypeptide binding]; other site 59374005951 proximal heme binding site [chemical binding]; other site 59374005952 distal heme binding site [chemical binding]; other site 59374005953 putative dimer interface [polypeptide binding]; other site 59374005954 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 59374005955 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374005956 domain; Region: Succ_DH_flav_C; pfam02910 59374005957 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 59374005958 Domain of unknown function (DUF955); Region: DUF955; cl01076 59374005959 Helix-turn-helix domains; Region: HTH; cl00088 59374005960 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 59374005961 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 59374005962 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 59374005963 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 59374005964 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374005965 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 59374005966 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 59374005967 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 59374005968 substrate binding pocket [chemical binding]; other site 59374005969 membrane-bound complex binding site; other site 59374005970 hinge residues; other site 59374005971 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 59374005972 dimer interface [polypeptide binding]; other site 59374005973 conserved gate region; other site 59374005974 putative PBP binding loops; other site 59374005975 ABC-ATPase subunit interface; other site 59374005976 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 59374005977 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 59374005978 Walker A/P-loop; other site 59374005979 ATP binding site [chemical binding]; other site 59374005980 Q-loop/lid; other site 59374005981 ABC transporter signature motif; other site 59374005982 Walker B; other site 59374005983 D-loop; other site 59374005984 H-loop/switch region; other site 59374005985 hypothetical protein; Reviewed; Region: PRK00024 59374005986 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 59374005987 MPN+ (JAMM) motif; other site 59374005988 Zinc-binding site [ion binding]; other site 59374005989 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 59374005990 ligand binding site [chemical binding]; other site 59374005991 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 59374005992 dimerization interface [polypeptide binding]; other site 59374005993 active site 59374005994 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 59374005995 active site 59374005996 metal binding site [ion binding]; metal-binding site 59374005997 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 59374005998 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 59374005999 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 59374006000 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 59374006001 ABC-ATPase subunit interface; other site 59374006002 dimer interface [polypeptide binding]; other site 59374006003 putative PBP binding regions; other site 59374006004 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374006005 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374006006 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374006007 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374006008 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374006009 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374006010 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374006011 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374006012 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374006013 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374006014 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374006015 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374006016 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 59374006017 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 59374006018 Walker A motif; other site 59374006019 ATP binding site [chemical binding]; other site 59374006020 Walker B motif; other site 59374006021 arginine finger; other site 59374006022 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 59374006023 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 59374006024 Walker A motif; other site 59374006025 ATP binding site [chemical binding]; other site 59374006026 Walker B motif; other site 59374006027 arginine finger; other site 59374006028 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374006029 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374006030 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 59374006031 protein binding site [polypeptide binding]; other site 59374006032 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 59374006033 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 59374006034 Maf-like protein; Region: Maf; pfam02545 59374006035 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 59374006036 active site 59374006037 dimer interface [polypeptide binding]; other site 59374006038 Helix-turn-helix domains; Region: HTH; cl00088 59374006039 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 59374006040 putative active site pocket [active] 59374006041 4-fold oligomerization interface [polypeptide binding]; other site 59374006042 metal binding residues [ion binding]; metal-binding site 59374006043 3-fold/trimer interface [polypeptide binding]; other site 59374006044 hypothetical protein, TIGR02147; Region: Fsuc_second 59374006045 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 59374006046 Radical SAM superfamily; Region: Radical_SAM; pfam04055 59374006047 FeS/SAM binding site; other site 59374006048 elongation factor P; Validated; Region: PRK00529 59374006049 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 59374006050 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 59374006051 RNA binding site [nucleotide binding]; other site 59374006052 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 59374006053 RNA binding site [nucleotide binding]; other site 59374006054 Domain of unknown function (DUF303); Region: DUF303; pfam03629 59374006055 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374006056 putative metal binding site [ion binding]; other site 59374006057 thiamine monophosphate kinase; Provisional; Region: PRK05731 59374006058 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 59374006059 ATP binding site [chemical binding]; other site 59374006060 dimerization interface [polypeptide binding]; other site 59374006061 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 59374006062 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 59374006063 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 59374006064 Walker A motif; other site 59374006065 ATP binding site [chemical binding]; other site 59374006066 Walker B motif; other site 59374006067 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 59374006068 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374006069 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 59374006070 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 59374006071 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 59374006072 active site 59374006073 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 59374006074 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 59374006075 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 59374006076 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 59374006077 S-adenosylmethionine binding site [chemical binding]; other site 59374006078 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 59374006079 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 59374006080 active site 59374006081 nucleotide binding site [chemical binding]; other site 59374006082 HIGH motif; other site 59374006083 KMSKS motif; other site 59374006084 Rhomboid family; Region: Rhomboid; cl11446 59374006085 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular adenosine...; Region: adenosine_kinase; cd01168 59374006086 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 59374006087 substrate binding site [chemical binding]; other site 59374006088 ATP binding site [chemical binding]; other site 59374006089 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 59374006090 Surface antigen; Region: Bac_surface_Ag; cl03097 59374006091 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 59374006092 dimer interface [polypeptide binding]; other site 59374006093 substrate binding site [chemical binding]; other site 59374006094 metal binding sites [ion binding]; metal-binding site 59374006095 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 59374006096 UDP-glucose 4-epimerase; Region: PLN02240 59374006097 NAD binding site [chemical binding]; other site 59374006098 homodimer interface [polypeptide binding]; other site 59374006099 active site 59374006100 substrate binding site [chemical binding]; other site 59374006101 Mechanosensitive ion channel; Region: MS_channel; pfam00924 59374006102 Chorismate mutase type II; Region: CM_2; cl00693 59374006103 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 59374006104 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374006105 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 59374006106 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 59374006107 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats with a...; Region: EPT_RTPC-like; cl00288 59374006108 putative active site [active] 59374006109 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 59374006110 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 59374006111 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 59374006112 RNA binding surface [nucleotide binding]; other site 59374006113 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 59374006114 active site 59374006115 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 59374006116 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 59374006117 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374006118 homodimer interface [polypeptide binding]; other site 59374006119 catalytic residue [active] 59374006120 Pectate lyase; Region: Pec_lyase_C; cl01593 59374006121 Carbohydrate Binding Module family 35 (CBM35), pectate lyase-like; appended mainly to enzymes that bind mannan (Man), xylan, glucuronic acid (GlcA) and possibly glucans; Region: CBM35_pectate_lyase-like; cd04082 59374006122 Ca binding site [ion binding]; other site 59374006123 ligand binding site [chemical binding]; other site 59374006124 Ca binding site (active) [ion binding]; other site 59374006125 Arginase family; Region: Arginase; cl00306 59374006126 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 59374006127 nucleoside/Zn binding site; other site 59374006128 dimer interface [polypeptide binding]; other site 59374006129 catalytic motif [active] 59374006130 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; cl15367 59374006131 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 59374006132 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; cl14869 59374006133 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 59374006134 FMN binding site [chemical binding]; other site 59374006135 active site 59374006136 catalytic residues [active] 59374006137 substrate binding site [chemical binding]; other site 59374006138 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 59374006139 active site 59374006140 dimerization interface [polypeptide binding]; other site 59374006141 TM2 domain; Region: TM2; cl00984 59374006142 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 59374006143 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 59374006144 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 59374006145 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 59374006146 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 59374006147 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 59374006148 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 59374006149 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 59374006150 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 59374006151 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374006152 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 59374006153 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 59374006154 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 59374006155 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 59374006156 CoA enzyme activase uncharacterised domain (DUF2229); Region: DUF2229; pfam09989 59374006157 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 59374006158 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 59374006159 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 59374006160 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 59374006161 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 59374006162 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 59374006163 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 59374006164 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 59374006165 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 59374006166 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 59374006167 GIY-YIG motif/motif A; other site 59374006168 putative active site [active] 59374006169 putative metal binding site [ion binding]; other site 59374006170 Helix-turn-helix domains; Region: HTH; cl00088 59374006171 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 59374006172 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 59374006173 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 59374006174 TPR motif; other site 59374006175 binding surface 59374006176 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 59374006177 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 59374006178 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 59374006179 Zn2+ binding site [ion binding]; other site 59374006180 Mg2+ binding site [ion binding]; other site 59374006181 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 59374006182 L11 interface [polypeptide binding]; other site 59374006183 putative EF-Tu interaction site [polypeptide binding]; other site 59374006184 putative EF-G interaction site [polypeptide binding]; other site 59374006185 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 59374006186 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 59374006187 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 59374006188 Cl- selectivity filter; other site 59374006189 Cl- binding residues [ion binding]; other site 59374006190 pore gating glutamate residue; other site 59374006191 dimer interface [polypeptide binding]; other site 59374006192 Peptidase family M23; Region: Peptidase_M23; pfam01551 59374006193 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 59374006194 putative peptidoglycan binding site; other site 59374006195 MBOAT family; Region: MBOAT; cl00738 59374006196 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 59374006197 active site 59374006198 oxyanion hole [active] 59374006199 catalytic triad [active] 59374006200 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 59374006201 active site 59374006202 oxyanion hole [active] 59374006203 catalytic triad [active] 59374006204 histidyl-tRNA synthetase; Region: hisS; TIGR00442 59374006205 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 59374006206 dimer interface [polypeptide binding]; other site 59374006207 motif 1; other site 59374006208 active site 59374006209 motif 2; other site 59374006210 motif 3; other site 59374006211 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 59374006212 anticodon binding site; other site 59374006213 malate dehydrogenase; Reviewed; Region: PRK06223 59374006214 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 59374006215 NAD(P) binding site [chemical binding]; other site 59374006216 dimer interface [polypeptide binding]; other site 59374006217 tetramer (dimer of dimers) interface [polypeptide binding]; other site 59374006218 substrate binding site [chemical binding]; other site 59374006219 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374006220 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374006221 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374006222 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 59374006223 substrate binding site [chemical binding]; other site 59374006224 active site 59374006225 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 59374006226 Glycosyl hydrolases family 43; Region: Glyco_hydro_43; pfam04616 59374006227 substrate binding site [chemical binding]; other site 59374006228 active site 59374006229 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 59374006230 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 59374006231 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 59374006232 Glycosyl hydrolases family 43; Region: Glyco_hydro_43; pfam04616 59374006233 substrate binding site [chemical binding]; other site 59374006234 active site 59374006235 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 59374006236 metal binding site [ion binding]; metal-binding site 59374006237 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 59374006238 ligand binding site [chemical binding]; other site 59374006239 metal binding site [ion binding]; metal-binding site 59374006240 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 59374006241 Interdomain contacts; other site 59374006242 Cytokine receptor motif; other site 59374006243 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 59374006244 Interdomain contacts; other site 59374006245 Cytokine receptor motif; other site 59374006246 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 59374006247 Interdomain contacts; other site 59374006248 Cytokine receptor motif; other site 59374006249 Protein of unknown function, DUF486; Region: DUF486; cl01236 59374006250 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 59374006251 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 59374006252 non-specific DNA binding site [nucleotide binding]; other site 59374006253 salt bridge; other site 59374006254 sequence-specific DNA binding site [nucleotide binding]; other site 59374006255 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 59374006256 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 59374006257 dimer interface [polypeptide binding]; other site 59374006258 putative anticodon binding site; other site 59374006259 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 59374006260 motif 1; other site 59374006261 active site 59374006262 motif 2; other site 59374006263 motif 3; other site 59374006264 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 59374006265 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 59374006266 FtsX-like permease family; Region: FtsX; pfam02687 59374006267 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 59374006268 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 59374006269 Walker A/P-loop; other site 59374006270 ATP binding site [chemical binding]; other site 59374006271 Q-loop/lid; other site 59374006272 ABC transporter signature motif; other site 59374006273 Walker B; other site 59374006274 D-loop; other site 59374006275 H-loop/switch region; other site 59374006276 Clp protease ATP binding subunit; Region: clpC; CHL00095 59374006277 Clp amino terminal domain; Region: Clp_N; pfam02861 59374006278 Clp amino terminal domain; Region: Clp_N; pfam02861 59374006279 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 59374006280 Walker A motif; other site 59374006281 ATP binding site [chemical binding]; other site 59374006282 Walker B motif; other site 59374006283 arginine finger; other site 59374006284 UvrB/uvrC motif; Region: UVR; pfam02151 59374006285 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 59374006286 Walker A motif; other site 59374006287 ATP binding site [chemical binding]; other site 59374006288 Walker B motif; other site 59374006289 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 59374006290 adenylate kinases; Region: adk; TIGR01351 59374006291 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 59374006292 AMP-binding site [chemical binding]; other site 59374006293 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 59374006294 hypothetical protein, TIGR02147; Region: Fsuc_second 59374006295 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 59374006296 tartrate dehydrogenase; Provisional; Region: PRK08194 59374006297 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 59374006298 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 59374006299 Walker A motif; other site 59374006300 ATP binding site [chemical binding]; other site 59374006301 Walker B motif; other site 59374006302 arginine finger; other site 59374006303 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 59374006304 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 59374006305 RuvA N terminal domain; Region: RuvA_N; pfam01330 59374006306 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 59374006307 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 59374006308 inhibitor-cofactor binding pocket; inhibition site 59374006309 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374006310 catalytic residue [active] 59374006311 Bacterial sugar transferase; Region: Bac_transf; cl00939 59374006312 D-cysteine desulfhydrase; Validated; Region: PRK03910 59374006313 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 59374006314 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 59374006315 catalytic residue [active] 59374006316 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 59374006317 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 59374006318 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 59374006319 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 59374006320 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 59374006321 putative ADP-binding pocket [chemical binding]; other site 59374006322 UDP-D-galactose:(glucosyl)lipopolysaccharide-1, 6-D-galactosyltransferase; Provisional; Region: PRK09922 59374006323 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 59374006324 putative ADP-binding pocket [chemical binding]; other site 59374006325 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 59374006326 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 59374006327 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 59374006328 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 59374006329 active site 59374006330 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 59374006331 ferredoxin; Validated; Region: PRK07118 59374006332 4Fe-4S binding domain; Region: Fer4; cl02805 59374006333 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 59374006334 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 59374006335 active site 59374006336 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 59374006337 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374006338 Acyltransferase family; Region: Acyl_transf_3; pfam01757 59374006339 OpgC protein; Region: OpgC_C; cl00792 59374006340 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 59374006341 OpgC protein; Region: OpgC_C; cl00792 59374006342 Fumarase C-terminus; Region: Fumerase_C; cl00795 59374006343 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 59374006344 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 59374006345 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 59374006346 putative active site [active] 59374006347 putative metal binding site [ion binding]; other site 59374006348 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 59374006349 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 59374006350 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 59374006351 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 59374006352 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 59374006353 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 59374006354 inhibitor-cofactor binding pocket; inhibition site 59374006355 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374006356 catalytic residue [active] 59374006357 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 59374006358 MatE; Region: MatE; cl10513 59374006359 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 59374006360 active site 59374006361 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 59374006362 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 59374006363 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 59374006364 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 59374006365 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 59374006366 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 59374006367 active site 59374006368 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 59374006369 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 59374006370 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 59374006371 active site 59374006372 homodimer interface [polypeptide binding]; other site 59374006373 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 59374006374 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374006375 NAD(P) binding site [chemical binding]; other site 59374006376 active site 59374006377 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 59374006378 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 59374006379 NAD(P) binding site [chemical binding]; other site 59374006380 homodimer interface [polypeptide binding]; other site 59374006381 substrate binding site [chemical binding]; other site 59374006382 active site 59374006383 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 59374006384 putative glycosyl transferase; Provisional; Region: PRK10307 59374006385 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 59374006386 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 59374006387 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374006388 NAD(P) binding site [chemical binding]; other site 59374006389 active site 59374006390 Bacterial sugar transferase; Region: Bac_transf; cl00939 59374006391 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 59374006392 putative trimer interface [polypeptide binding]; other site 59374006393 putative CoA binding site [chemical binding]; other site 59374006394 Uncharacterized phage-associated protein [Function unknown]; Region: GepA; COG3600 59374006395 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 59374006396 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 59374006397 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374006398 Walker A/P-loop; other site 59374006399 ATP binding site [chemical binding]; other site 59374006400 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 59374006401 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 59374006402 NAD(P) binding site [chemical binding]; other site 59374006403 homodimer interface [polypeptide binding]; other site 59374006404 substrate binding site [chemical binding]; other site 59374006405 active site 59374006406 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 59374006407 capsular polysaccharide assembling protein (CAPF) like, extended (e) SDRs; Region: CAPF_like_SDR_e; cd05261 59374006408 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 59374006409 putative NAD(P) binding site [chemical binding]; other site 59374006410 active site 59374006411 putative substrate binding site [chemical binding]; other site 59374006412 Cupin domain; Region: Cupin_2; cl09118 59374006413 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 59374006414 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 59374006415 active site 59374006416 homodimer interface [polypeptide binding]; other site 59374006417 Uncharacterized phage-associated protein [Function unknown]; Region: GepA; COG3600 59374006418 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 59374006419 Walker A motif; other site 59374006420 ATP binding site [chemical binding]; other site 59374006421 beta-Glucocerebrosidase 2 N terminal; Region: GBA2_N; pfam12215 59374006422 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 59374006423 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 59374006424 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 59374006425 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 59374006426 active site 59374006427 substrate binding site [chemical binding]; other site 59374006428 cosubstrate binding site; other site 59374006429 catalytic site [active] 59374006430 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 59374006431 RNA/DNA hybrid binding site [nucleotide binding]; other site 59374006432 active site 59374006433 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 59374006434 putative active site [active] 59374006435 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 59374006436 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 59374006437 G1 box; other site 59374006438 putative GEF interaction site [polypeptide binding]; other site 59374006439 GTP/Mg2+ binding site [chemical binding]; other site 59374006440 Switch I region; other site 59374006441 G2 box; other site 59374006442 G3 box; other site 59374006443 Switch II region; other site 59374006444 G4 box; other site 59374006445 G5 box; other site 59374006446 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 59374006447 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 59374006448 Arylsulfatase regulator (Fe-S oxidoreductase) [General function prediction only]; Region: AslB; COG0641 59374006449 FeS/SAM binding site; other site 59374006450 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; cl14869 59374006451 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 59374006452 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 59374006453 putative valine binding site [chemical binding]; other site 59374006454 dimer interface [polypeptide binding]; other site 59374006455 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 59374006456 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 59374006457 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 59374006458 PYR/PP interface [polypeptide binding]; other site 59374006459 dimer interface [polypeptide binding]; other site 59374006460 TPP binding site [chemical binding]; other site 59374006461 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 59374006462 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 59374006463 TPP-binding site [chemical binding]; other site 59374006464 dimer interface [polypeptide binding]; other site 59374006465 MBOAT family; Region: MBOAT; cl00738 59374006466 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 59374006467 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 59374006468 Walker A/P-loop; other site 59374006469 ATP binding site [chemical binding]; other site 59374006470 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 59374006471 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 59374006472 Q-loop/lid; other site 59374006473 ABC transporter signature motif; other site 59374006474 Walker B; other site 59374006475 D-loop; other site 59374006476 H-loop/switch region; other site 59374006477 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 59374006478 EamA-like transporter family; Region: EamA; cl01037 59374006479 EamA-like transporter family; Region: EamA; cl01037 59374006480 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12315 59374006481 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 59374006482 TPP-binding site; other site 59374006483 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 59374006484 PYR/PP interface [polypeptide binding]; other site 59374006485 dimer interface [polypeptide binding]; other site 59374006486 TPP binding site [chemical binding]; other site 59374006487 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 59374006488 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 59374006489 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 59374006490 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 59374006491 active site residue [active] 59374006492 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 59374006493 catalytic motif [active] 59374006494 Zn binding site [ion binding]; other site 59374006495 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 59374006496 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 59374006497 Lumazine binding domain; Region: Lum_binding; pfam00677 59374006498 Lumazine binding domain; Region: Lum_binding; pfam00677 59374006499 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 59374006500 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 59374006501 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 59374006502 dimerization interface [polypeptide binding]; other site 59374006503 active site 59374006504 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 59374006505 homopentamer interface [polypeptide binding]; other site 59374006506 active site 59374006507 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 59374006508 putative RNA binding site [nucleotide binding]; other site 59374006509 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl15364 59374006510 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 59374006511 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 59374006512 Ligand binding site; other site 59374006513 Putative Catalytic site; other site 59374006514 DXD motif; other site 59374006515 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 59374006516 Ligand binding site; other site 59374006517 Putative Catalytic site; other site 59374006518 DXD motif; other site 59374006519 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 59374006520 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 59374006521 Probable Catalytic site; other site 59374006522 metal-binding site 59374006523 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 59374006524 Trm112p-like protein; Region: Trm112p; cl01066 59374006525 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 59374006526 TPR motif; other site 59374006527 binding surface 59374006528 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 59374006529 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374006530 ATP binding site [chemical binding]; other site 59374006531 Walker B motif; other site 59374006532 putative protease; Provisional; Region: PRK15452 59374006533 Peptidase family U32; Region: Peptidase_U32; cl03113 59374006534 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 59374006535 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 59374006536 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374006537 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 59374006538 DnaA box-binding interface [nucleotide binding]; other site 59374006539 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 59374006540 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 59374006541 putative NAD(P) binding site [chemical binding]; other site 59374006542 active site 59374006543 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 59374006544 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 59374006545 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 59374006546 Ligand Binding Site [chemical binding]; other site 59374006547 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 59374006548 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 59374006549 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 59374006550 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 59374006551 active site 59374006552 catalytic residues [active] 59374006553 metal binding site [ion binding]; metal-binding site 59374006554 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 59374006555 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 59374006556 histidinol dehydrogenase; Region: hisD; TIGR00069 59374006557 NAD binding site [chemical binding]; other site 59374006558 dimerization interface [polypeptide binding]; other site 59374006559 product binding site; other site 59374006560 substrate binding site [chemical binding]; other site 59374006561 zinc binding site [ion binding]; other site 59374006562 catalytic residues [active] 59374006563 Colicin V production protein; Region: Colicin_V; cl00567 59374006564 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 59374006565 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 59374006566 active site 59374006567 ATP binding site [chemical binding]; other site 59374006568 substrate binding site [chemical binding]; other site 59374006569 activation loop (A-loop); other site 59374006570 L-aspartate oxidase; Provisional; Region: PRK09077 59374006571 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374006572 domain; Region: Succ_DH_flav_C; pfam02910 59374006573 PPIC-type PPIASE domain; Region: Rotamase; cl08278 59374006574 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 59374006575 ligand binding site [chemical binding]; other site 59374006576 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 59374006577 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 59374006578 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374006579 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374006580 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 59374006581 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374006582 Walker A/P-loop; other site 59374006583 ATP binding site [chemical binding]; other site 59374006584 Q-loop/lid; other site 59374006585 ABC transporter signature motif; other site 59374006586 Walker B; other site 59374006587 D-loop; other site 59374006588 H-loop/switch region; other site 59374006589 ABC transporter; Region: ABC_tran_2; pfam12848 59374006590 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 59374006591 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 59374006592 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 59374006593 membrane-bound complex binding site; other site 59374006594 hinge residues; other site 59374006595 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 59374006596 substrate binding pocket [chemical binding]; other site 59374006597 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 59374006598 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 59374006599 dimer interface [polypeptide binding]; other site 59374006600 conserved gate region; other site 59374006601 putative PBP binding loops; other site 59374006602 ABC-ATPase subunit interface; other site 59374006603 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 59374006604 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 59374006605 Walker A/P-loop; other site 59374006606 ATP binding site [chemical binding]; other site 59374006607 Q-loop/lid; other site 59374006608 ABC transporter signature motif; other site 59374006609 Walker B; other site 59374006610 D-loop; other site 59374006611 H-loop/switch region; other site 59374006612 MAEBL; Provisional; Region: PTZ00121 59374006613 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 59374006614 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 59374006615 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 59374006616 dihydropteroate synthase; Region: DHPS; TIGR01496 59374006617 substrate binding pocket [chemical binding]; other site 59374006618 dimer interface [polypeptide binding]; other site 59374006619 inhibitor binding site; inhibition site 59374006620 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 59374006621 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 59374006622 Walker A motif; other site 59374006623 ATP binding site [chemical binding]; other site 59374006624 Walker B motif; other site 59374006625 arginine finger; other site 59374006626 Peptidase family M41; Region: Peptidase_M41; pfam01434 59374006627 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 59374006628 Ligand Binding Site [chemical binding]; other site 59374006629 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 59374006630 S-adenosylmethionine synthetase; Validated; Region: PRK05250 59374006631 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 59374006632 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 59374006633 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 59374006634 Uncharacterized conserved protein [Function unknown]; Region: COG0327 59374006635 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 59374006636 Peptidase family M23; Region: Peptidase_M23; pfam01551 59374006637 Protein HOTHEAD; Region: PLN02785 59374006638 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 59374006639 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 59374006640 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 59374006641 Zn2+ binding site [ion binding]; other site 59374006642 Mg2+ binding site [ion binding]; other site 59374006643 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374006644 proline aminopeptidase P II; Provisional; Region: PRK10879 59374006645 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 59374006646 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 59374006647 active site 59374006648 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 59374006649 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 59374006650 putative substrate translocation pore; other site 59374006651 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 59374006652 putative acyl-acceptor binding pocket; other site 59374006653 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 59374006654 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 59374006655 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 59374006656 active site 59374006657 dimerization interface [polypeptide binding]; other site 59374006658 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 59374006659 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 59374006660 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 59374006661 Acyl transferase domain; Region: Acyl_transf_1; cl08282 59374006662 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 59374006663 Phosphopantetheine attachment site; Region: PP-binding; cl09936 59374006664 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 59374006665 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 59374006666 dimer interface [polypeptide binding]; other site 59374006667 active site 59374006668 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 59374006669 active site 59374006670 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 59374006671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374006672 NAD(P) binding site [chemical binding]; other site 59374006673 active site 59374006674 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 59374006675 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 59374006676 putative acyl-acceptor binding pocket; other site 59374006677 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 59374006678 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 59374006679 active site 59374006680 nucleophile elbow; other site 59374006681 glutamate dehydrogenase; Provisional; Region: PRK09414 59374006682 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 59374006683 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 59374006684 NAD(P) binding site [chemical binding]; other site 59374006685 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 59374006686 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374006687 metal binding site [ion binding]; metal-binding site 59374006688 active site 59374006689 I-site; other site 59374006690 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 59374006691 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 59374006692 active site 59374006693 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 59374006694 domain; Region: GreA_GreB_N; pfam03449 59374006695 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 59374006696 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374006697 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 59374006698 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 59374006699 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 59374006700 GTP-binding protein LepA; Provisional; Region: PRK05433 59374006701 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 59374006702 G1 box; other site 59374006703 putative GEF interaction site [polypeptide binding]; other site 59374006704 GTP/Mg2+ binding site [chemical binding]; other site 59374006705 Switch I region; other site 59374006706 G2 box; other site 59374006707 G3 box; other site 59374006708 Switch II region; other site 59374006709 G4 box; other site 59374006710 G5 box; other site 59374006711 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 59374006712 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 59374006713 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 59374006714 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 59374006715 active site 59374006716 Helix-turn-helix domains; Region: HTH; cl00088 59374006717 LexA repressor; Validated; Region: PRK00215 59374006718 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 59374006719 Catalytic site [active] 59374006720 CotH protein; Region: CotH; pfam08757 59374006721 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 59374006722 S-adenosylmethionine binding site [chemical binding]; other site 59374006723 Bacterial domain of unknown function (DUF403); Region: DUF403; cl00980 59374006724 Uncharacterized conserved protein [Function unknown]; Region: COG2308 59374006725 Domain of unknown function (DUF404); Region: DUF404; pfam04169 59374006726 Domain of unknown function (DUF407); Region: DUF407; pfam04174 59374006727 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 59374006728 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 59374006729 Uncharacterized conserved protein [Function unknown]; Region: COG2308 59374006730 Domain of unknown function (DUF404); Region: DUF404; pfam04169 59374006731 Domain of unknown function (DUF407); Region: DUF407; pfam04174 59374006732 Bacterial domain of unknown function (DUF403); Region: DUF403; cl00980 59374006733 acetolactate synthase; Reviewed; Region: PRK08322 59374006734 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 59374006735 PYR/PP interface [polypeptide binding]; other site 59374006736 dimer interface [polypeptide binding]; other site 59374006737 TPP binding site [chemical binding]; other site 59374006738 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 59374006739 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 59374006740 TPP-binding site [chemical binding]; other site 59374006741 dimer interface [polypeptide binding]; other site 59374006742 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 59374006743 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 59374006744 dimer interface [polypeptide binding]; other site 59374006745 anticodon binding site; other site 59374006746 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 59374006747 homodimer interface [polypeptide binding]; other site 59374006748 motif 1; other site 59374006749 active site 59374006750 motif 2; other site 59374006751 GAD domain; Region: GAD; pfam02938 59374006752 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 59374006753 active site 59374006754 motif 3; other site 59374006755 Mitochondrial ATP synthase B chain precursor (ATP-synt_B); Region: Mt_ATP-synt_B; cl07975 59374006756 V-type ATP synthase subunit A; Provisional; Region: PRK04192 59374006757 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 59374006758 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 59374006759 Walker A motif/ATP binding site; other site 59374006760 Walker B motif; other site 59374006761 V-type ATP synthase subunit B; Provisional; Region: PRK02118 59374006762 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 59374006763 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 59374006764 Walker A motif homologous position; other site 59374006765 Walker B motif; other site 59374006766 ATP synthase subunit D; Region: ATP-synt_D; cl00613 59374006767 V-type ATP synthase subunit I; Validated; Region: PRK05771 59374006768 V-type ATP synthase subunit K; Validated; Region: PRK06649 59374006769 ATP synthase subunit C; Region: ATP-synt_C; cl00466 59374006770 Phosphotransferase enzyme family; Region: APH; pfam01636 59374006771 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 59374006772 substrate binding site [chemical binding]; other site 59374006773 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; cl00163 59374006774 active site 59374006775 phosphorylation site [posttranslational modification] 59374006776 DoxX; Region: DoxX; cl00976 59374006777 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 59374006778 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 59374006779 active site 59374006780 HIGH motif; other site 59374006781 KMSKS motif; other site 59374006782 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 59374006783 tRNA binding surface [nucleotide binding]; other site 59374006784 anticodon binding site; other site 59374006785 The tRNA binding domain is also known as the Myf domain in literature. This domain is found in a diverse collection of tRNA binding proteins, including prokaryotic phenylalanyl tRNA synthetases (PheRS), methionyl-tRNA synthetases (MetRS), human...; Region: tRNA_bindingDomain; cl00320 59374006786 putative tRNA-binding site [nucleotide binding]; other site 59374006787 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374006788 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374006789 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374006790 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374006791 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 59374006792 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 59374006793 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 59374006794 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 59374006795 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 59374006796 FMN binding site [chemical binding]; other site 59374006797 dimer interface [polypeptide binding]; other site 59374006798 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 59374006799 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 59374006800 active site 59374006801 metal binding site [ion binding]; metal-binding site 59374006802 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 59374006803 adenylosuccinate lyase; Region: purB; TIGR00928 59374006804 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 59374006805 tetramer interface [polypeptide binding]; other site 59374006806 active site 59374006807 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 59374006808 Phosphotransferase enzyme family; Region: APH; pfam01636 59374006809 active site 59374006810 ATP binding site [chemical binding]; other site 59374006811 substrate binding site [chemical binding]; other site 59374006812 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 59374006813 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 59374006814 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 59374006815 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 59374006816 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 59374006817 ATP binding site [chemical binding]; other site 59374006818 putative Mg++ binding site [ion binding]; other site 59374006819 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 59374006820 nucleotide binding region [chemical binding]; other site 59374006821 ATP-binding site [chemical binding]; other site 59374006822 TRCF domain; Region: TRCF; cl04088 59374006823 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 59374006824 active site 59374006825 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374006826 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374006827 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 59374006828 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 59374006829 GatB domain; Region: GatB_Yqey; cl11497 59374006830 IMP cyclohydrolase-like protein; Region: IMP_cyclohyd; cl01330 59374006831 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 59374006832 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 59374006833 DNA-binding site [nucleotide binding]; DNA binding site 59374006834 Transcriptional regulators [Transcription]; Region: PurR; COG1609 59374006835 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 59374006836 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 59374006837 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 59374006838 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 59374006839 NifU-like domain; Region: NifU; cl00484 59374006840 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 59374006841 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 59374006842 ligand binding site; other site 59374006843 oligomer interface; other site 59374006844 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 59374006845 dimer interface [polypeptide binding]; other site 59374006846 N-terminal domain interface [polypeptide binding]; other site 59374006847 sulfate 1 binding site; other site 59374006848 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 59374006849 Glycosyl hydrolase family 9; Region: Glyco_hydro_9; cl02959 59374006850 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 59374006851 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 59374006852 S-adenosylmethionine binding site [chemical binding]; other site 59374006853 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 59374006854 BsuBI/PstI restriction endonuclease C-terminus; Region: BsuBI_PstI_RE; pfam06616 59374006855 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 59374006856 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 59374006857 dimer interface [polypeptide binding]; other site 59374006858 PYR/PP interface [polypeptide binding]; other site 59374006859 TPP binding site [chemical binding]; other site 59374006860 substrate binding site [chemical binding]; other site 59374006861 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 59374006862 Domain of unknown function; Region: EKR; cl11037 59374006863 4Fe-4S binding domain; Region: Fer4; cl02805 59374006864 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 59374006865 TPP-binding site [chemical binding]; other site 59374006866 dimer interface [polypeptide binding]; other site 59374006867 N-formylglutamate amidohydrolase; Region: FGase; cl01522 59374006868 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374006869 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 59374006870 phosphate binding site [ion binding]; other site 59374006871 Glycosyl hydrolase family 43; Region: GH43_4; cd08983 59374006872 active site 59374006873 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 59374006874 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 59374006875 active site 59374006876 phosphorylation site [posttranslational modification] 59374006877 intermolecular recognition site; other site 59374006878 dimerization interface [polypeptide binding]; other site 59374006879 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 59374006880 Zn2+ binding site [ion binding]; other site 59374006881 Mg2+ binding site [ion binding]; other site 59374006882 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 59374006883 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 59374006884 dimer interface [polypeptide binding]; other site 59374006885 phosphorylation site [posttranslational modification] 59374006886 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 59374006887 ATP binding site [chemical binding]; other site 59374006888 Mg2+ binding site [ion binding]; other site 59374006889 G-X-G motif; other site 59374006890 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 59374006891 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 59374006892 active site 59374006893 phosphorylation site [posttranslational modification] 59374006894 intermolecular recognition site; other site 59374006895 dimerization interface [polypeptide binding]; other site 59374006896 Response regulator receiver domain; Region: Response_reg; pfam00072 59374006897 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 59374006898 active site 59374006899 phosphorylation site [posttranslational modification] 59374006900 intermolecular recognition site; other site 59374006901 dimerization interface [polypeptide binding]; other site 59374006902 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 59374006903 Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); Region: Auto_anti-p27; cl00713 59374006904 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 59374006905 hypothetical protein; Provisional; Region: PRK08185 59374006906 intersubunit interface [polypeptide binding]; other site 59374006907 active site 59374006908 zinc binding site [ion binding]; other site 59374006909 Na+ binding site [ion binding]; other site 59374006910 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 59374006911 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 59374006912 ligand binding site [chemical binding]; other site 59374006913 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 59374006914 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 59374006915 active site 59374006916 Zn binding site [ion binding]; other site 59374006917 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 59374006918 dimer interface [polypeptide binding]; other site 59374006919 phosphorylation site [posttranslational modification] 59374006920 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 59374006921 ATP binding site [chemical binding]; other site 59374006922 G-X-G motif; other site 59374006923 Response regulator receiver domain; Region: Response_reg; pfam00072 59374006924 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 59374006925 active site 59374006926 phosphorylation site [posttranslational modification] 59374006927 intermolecular recognition site; other site 59374006928 dimerization interface [polypeptide binding]; other site 59374006929 Helix-turn-helix domains; Region: HTH; cl00088 59374006930 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 59374006931 Putative carbohydrate binding domain; Region: CBM_X; cl05621 59374006932 Glycosyltransferase family 36; Region: Glyco_transf_36; pfam06165 59374006933 Glycosyltransferase 36 associated family; Region: GT36_AF; pfam06205 59374006934 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 59374006935 prolyl-tRNA synthetase; Provisional; Region: PRK09194 59374006936 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 59374006937 dimer interface [polypeptide binding]; other site 59374006938 motif 1; other site 59374006939 active site 59374006940 motif 2; other site 59374006941 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 59374006942 putative deacylase active site [active] 59374006943 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 59374006944 active site 59374006945 motif 3; other site 59374006946 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 59374006947 anticodon binding site; other site 59374006948 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 59374006949 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 59374006950 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 59374006951 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 59374006952 catalytic residues [active] 59374006953 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 59374006954 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 59374006955 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 59374006956 thiS-thiF/thiG interaction site; other site 59374006957 thiamine biosynthesis protein ThiF, family 2; Region: thiF_fam2; TIGR02354 59374006958 E1_ThiF_like. Member of superfamily of activating enzymes (E1) of the ubiquitin-like proteins. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like substrate, on...; Region: E1_ThiF_like; cd01487 59374006959 putative ATP binding site [chemical binding]; other site 59374006960 putative substrate interface [chemical binding]; other site 59374006961 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 59374006962 ThiS interaction site; other site 59374006963 putative active site [active] 59374006964 tetramer interface [polypeptide binding]; other site 59374006965 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 59374006966 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 59374006967 FeS/SAM binding site; other site 59374006968 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 59374006969 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 59374006970 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 59374006971 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 59374006972 thiamine phosphate binding site [chemical binding]; other site 59374006973 active site 59374006974 pyrophosphate binding site [ion binding]; other site 59374006975 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 59374006976 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 59374006977 ligand binding site [chemical binding]; other site 59374006978 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional; Region: PRK09841 59374006979 Chain length determinant protein; Region: Wzz; cl01623 59374006980 Chain length determinant protein; Region: Wzz; cl01623 59374006981 Chain length determinant protein; Region: Wzz; cl01623 59374006982 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374006983 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 59374006984 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 59374006985 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 59374006986 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 59374006987 chaperone protein DnaJ; Provisional; Region: PRK10767 59374006988 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 59374006989 HSP70 interaction site [polypeptide binding]; other site 59374006990 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 59374006991 Zn binding sites [ion binding]; other site 59374006992 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 59374006993 dimer interface [polypeptide binding]; other site 59374006994 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 59374006995 Phd_YefM; Region: PhdYeFM; cl09153 59374006996 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 59374006997 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 59374006998 RelB antitoxin; Region: RelB; cl01171 59374006999 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 59374007000 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 59374007001 substrate binding site [chemical binding]; other site 59374007002 active site 59374007003 Glycosyl hydrolases family 43; Region: Glyco_hydro_43; pfam04616 59374007004 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 59374007005 metal binding site [ion binding]; metal-binding site 59374007006 ligand binding site [chemical binding]; other site 59374007007 Carbohydrate Binding Module Family 6 (CBM6), Fibrobacter succinogenes S85 Xyn10D-like; appended mainly to glycoside hydrolase (GH) family 5 and GH43 domains; Region: CBM6_FsXyn10D-like; cd09838 59374007008 putative metal binding site [ion binding]; other site 59374007009 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 59374007010 dimer interface [polypeptide binding]; other site 59374007011 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 59374007012 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 59374007013 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 59374007014 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 59374007015 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 59374007016 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 59374007017 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 59374007018 FeS/SAM binding site; other site 59374007019 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 59374007020 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 59374007021 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 59374007022 catalytic site [active] 59374007023 subunit interface [polypeptide binding]; other site 59374007024 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 59374007025 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 59374007026 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 59374007027 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 59374007028 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 59374007029 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 59374007030 IMP binding site; other site 59374007031 dimer interface [polypeptide binding]; other site 59374007032 interdomain contacts; other site 59374007033 partial ornithine binding site; other site 59374007034 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 59374007035 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374007036 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 59374007037 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 59374007038 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 59374007039 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 59374007040 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 59374007041 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 59374007042 ATP binding site [chemical binding]; other site 59374007043 putative Mg++ binding site [ion binding]; other site 59374007044 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 59374007045 nucleotide binding region [chemical binding]; other site 59374007046 ATP-binding site [chemical binding]; other site 59374007047 SprT homologues; Region: SprT; cl01182 59374007048 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 59374007049 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 59374007050 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 59374007051 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 59374007052 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 59374007053 active site 59374007054 substrate-binding site [chemical binding]; other site 59374007055 metal-binding site [ion binding] 59374007056 GTP binding site [chemical binding]; other site 59374007057 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 59374007058 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 59374007059 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 59374007060 FeS/SAM binding site; other site 59374007061 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 59374007062 active site 59374007063 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 59374007064 Ligand Binding Site [chemical binding]; other site 59374007065 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374007066 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 59374007067 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 59374007068 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 59374007069 substrate-cofactor binding pocket; other site 59374007070 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374007071 catalytic residue [active] 59374007072 6-carboxyhexanoate--CoA ligase; Region: BioW; cl00625 59374007073 Pimeloyl-CoA synthetase [Coenzyme metabolism]; Region: BioW; COG1424 59374007074 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 59374007075 metal binding site [ion binding]; metal-binding site 59374007076 active site 59374007077 I-site; other site 59374007078 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 59374007079 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 59374007080 inhibitor-cofactor binding pocket; inhibition site 59374007081 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374007082 catalytic residue [active] 59374007083 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 59374007084 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 59374007085 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 59374007086 active site 59374007087 catalytic residues [active] 59374007088 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 59374007089 dimer interface [polypeptide binding]; other site 59374007090 ssDNA binding site [nucleotide binding]; other site 59374007091 tetramer (dimer of dimers) interface [polypeptide binding]; other site 59374007092 C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional; Region: PRK14552 59374007093 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 59374007094 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374007095 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 59374007096 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 59374007097 chaperone protein DnaJ; Provisional; Region: PRK10767 59374007098 Gram-negative bacterial tonB protein; Region: TonB; cl10048 59374007099 alanine racemase; Reviewed; Region: alr; PRK00053 59374007100 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 59374007101 active site 59374007102 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 59374007103 dimer interface [polypeptide binding]; other site 59374007104 substrate binding site [chemical binding]; other site 59374007105 catalytic residues [active] 59374007106 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 59374007107 DNA binding site [nucleotide binding] 59374007108 active site 59374007109 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374007110 NAD(P) binding site [chemical binding]; other site 59374007111 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 59374007112 active site 59374007113 ADP/pyrophosphate binding site [chemical binding]; other site 59374007114 dimerization interface [polypeptide binding]; other site 59374007115 allosteric effector site; other site 59374007116 fructose-1,6-bisphosphate binding site; other site 59374007117 peptide chain release factor 2; Validated; Region: prfB; PRK00578 59374007118 RF-1 domain; Region: RF-1; cl02875 59374007119 RF-1 domain; Region: RF-1; cl02875 59374007120 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 59374007121 PPIC-type PPIASE domain; Region: Rotamase; cl08278 59374007122 N-carbamolyputrescine amidase; Region: PLN02747 59374007123 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 59374007124 putative active site; other site 59374007125 catalytic triad [active] 59374007126 putative dimer interface [polypeptide binding]; other site 59374007127 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 59374007128 agmatine deiminase; Region: agmatine_aguA; TIGR03380 59374007129 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 59374007130 Bacterial RNase HI containing a hybrid binding domain (HBD) at the N-terminus; Region: RNase_HI_bacteria_HBD; cd09277 59374007131 active site 59374007132 RNA/DNA hybrid binding site [nucleotide binding]; other site 59374007133 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 59374007134 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 59374007135 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 59374007136 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 59374007137 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 59374007138 multifunctional aminopeptidase A; Provisional; Region: PRK00913 59374007139 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 59374007140 interface (dimer of trimers) [polypeptide binding]; other site 59374007141 Substrate-binding/catalytic site; other site 59374007142 Zn-binding sites [ion binding]; other site 59374007143 GMP synthase; Reviewed; Region: guaA; PRK00074 59374007144 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 59374007145 AMP/PPi binding site [chemical binding]; other site 59374007146 candidate oxyanion hole; other site 59374007147 catalytic triad [active] 59374007148 potential glutamine specificity residues [chemical binding]; other site 59374007149 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 59374007150 ATP Binding subdomain [chemical binding]; other site 59374007151 Ligand Binding sites [chemical binding]; other site 59374007152 Dimerization subdomain; other site 59374007153 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 59374007154 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 59374007155 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 59374007156 dimer interface [polypeptide binding]; other site 59374007157 conserved gate region; other site 59374007158 putative PBP binding loops; other site 59374007159 ABC-ATPase subunit interface; other site 59374007160 dihydrodipicolinate reductase; Region: dapB_plant; TIGR02130 59374007161 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374007162 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 59374007163 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 59374007164 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 59374007165 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 59374007166 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 59374007167 N-acetyl-D-glucosamine binding site [chemical binding]; other site 59374007168 catalytic residue [active] 59374007169 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 59374007170 putative peptidoglycan binding site; other site 59374007171 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 59374007172 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 59374007173 putative peptidoglycan binding site; other site 59374007174 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 59374007175 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 59374007176 putative peptidoglycan binding site; other site 59374007177 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 59374007178 putative peptidoglycan binding site; other site 59374007179 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 59374007180 putative peptidoglycan binding site; other site 59374007181 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 59374007182 ligand binding site [chemical binding]; other site 59374007183 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 59374007184 molecular chaperone DnaK; Provisional; Region: PRK13410 59374007185 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 59374007186 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 59374007187 FeS/SAM binding site; other site 59374007188 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 59374007189 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 59374007190 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 59374007191 dimer interface [polypeptide binding]; other site 59374007192 active site 59374007193 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374007194 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 59374007195 NAD(P) binding site [chemical binding]; other site 59374007196 active site 59374007197 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 59374007198 active site 2 [active] 59374007199 active site 1 [active] 59374007200 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 59374007201 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 59374007202 dimer interface [polypeptide binding]; other site 59374007203 active site 59374007204 Predicted exporter [General function prediction only]; Region: COG4258 59374007205 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 59374007206 active site 59374007207 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 59374007208 active sites [active] 59374007209 tetramer interface [polypeptide binding]; other site 59374007210 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 59374007211 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 59374007212 putative acyl-acceptor binding pocket; other site 59374007213 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 59374007214 Ligand binding site; other site 59374007215 Putative Catalytic site; other site 59374007216 DXD motif; other site 59374007217 Predicted membrane protein [Function unknown]; Region: COG4648 59374007218 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 59374007219 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 59374007220 Phosphopantetheine attachment site; Region: PP-binding; cl09936 59374007221 Phosphopantetheine attachment site; Region: PP-binding; cl09936 59374007222 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 59374007223 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 59374007224 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 59374007225 putative acyl-acceptor binding pocket; other site 59374007226 argininosuccinate lyase; Provisional; Region: PRK00855 59374007227 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 59374007228 active sites [active] 59374007229 tetramer interface [polypeptide binding]; other site 59374007230 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374007231 Fibrobacter succinogenes major domain (Fib_succ_major); Region: Fib_succ_major; cl09821 59374007232 hypothetical protein; Provisional; Region: PRK09040 59374007233 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 59374007234 ligand binding site [chemical binding]; other site 59374007235 Prominin; Region: Prominin; pfam05478 59374007236 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 59374007237 nucleoside/Zn binding site; other site 59374007238 dimer interface [polypeptide binding]; other site 59374007239 catalytic motif [active] 59374007240 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 59374007241 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 59374007242 FeS/SAM binding site; other site 59374007243 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; cl14869 59374007244 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 59374007245 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 59374007246 dimer interface [polypeptide binding]; other site 59374007247 active site 59374007248 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 59374007249 putative active site [active] 59374007250 putative Zn binding site [ion binding]; other site 59374007251 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 59374007252 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 59374007253 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 59374007254 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 59374007255 inhibitor-cofactor binding pocket; inhibition site 59374007256 pyridoxal 5'-phosphate binding site [chemical binding]; other site 59374007257 catalytic residue [active] 59374007258 Mechanosensitive ion channel; Region: MS_channel; pfam00924 59374007259 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 59374007260 dimer interface [polypeptide binding]; other site 59374007261 active site 59374007262 Schiff base residues; other site 59374007263 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 59374007264 putative active site [active] 59374007265 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 59374007266 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 59374007267 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 59374007268 active site 59374007269 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 59374007270 Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members...; Region: cytidine_deaminase-like; cl00269 59374007271 active site 59374007272 Zn binding site [ion binding]; other site 59374007273 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 59374007274 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; cl03189 59374007275 domain interfaces; other site 59374007276 active site 59374007277 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 59374007278 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 59374007279 tRNA; other site 59374007280 putative tRNA binding site [nucleotide binding]; other site 59374007281 putative NADP binding site [chemical binding]; other site 59374007282 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 59374007283 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 59374007284 Helix-turn-helix domains; Region: HTH; cl00088 59374007285 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 59374007286 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 59374007287 FeS/SAM binding site; other site 59374007288 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; cl14869 59374007289 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 59374007290 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 59374007291 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 59374007292 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 59374007293 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 59374007294 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 59374007295 catalytic residue [active] 59374007296 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 59374007297 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 59374007298 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 59374007299 domain; Region: Glyco_hydro_2; pfam00703 59374007300 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 59374007301 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 59374007302 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 59374007303 putative catalytic cysteine [active] 59374007304 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 59374007305 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 59374007306 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 59374007307 ATP binding site [chemical binding]; other site 59374007308 putative Mg++ binding site [ion binding]; other site 59374007309 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 59374007310 nucleotide binding region [chemical binding]; other site 59374007311 ATP-binding site [chemical binding]; other site 59374007312 Restriction endonuclease; Region: Mrr_cat; cl00747 59374007313 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 59374007314 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 59374007315 ligand binding site [chemical binding]; other site 59374007316 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 59374007317 glycyl-tRNA synthetase; Provisional; Region: PRK04173 59374007318 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 59374007319 motif 1; other site 59374007320 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3'...; Region: GlyRS-like_core; cd00774 59374007321 active site 59374007322 motif 2; other site 59374007323 motif 3; other site 59374007324 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 59374007325 anticodon binding site; other site 59374007326 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 59374007327 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 59374007328 G1 box; other site 59374007329 GTP/Mg2+ binding site [chemical binding]; other site 59374007330 Switch I region; other site 59374007331 G2 box; other site 59374007332 G3 box; other site 59374007333 Switch II region; other site 59374007334 G4 box; other site 59374007335 G5 box; other site 59374007336 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 59374007337 tetramer interfaces [polypeptide binding]; other site 59374007338 binuclear metal-binding site [ion binding]; other site 59374007339 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 59374007340 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 59374007341 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 59374007342 dimer interface [polypeptide binding]; other site 59374007343 active site 59374007344 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 59374007345 putative active site [active] 59374007346 putative substrate binding site [chemical binding]; other site 59374007347 catalytic site [active] 59374007348 dimer interface [polypeptide binding]; other site 59374007349 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 59374007350 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 59374007351 Protein of unknown function (DUF436); Region: DUF436; cl01860 59374007352 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 59374007353 membrane-bound complex binding site; other site 59374007354 hinge residues; other site 59374007355 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 59374007356 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 59374007357 substrate binding pocket [chemical binding]; other site 59374007358 membrane-bound complex binding site; other site 59374007359 hinge residues; other site 59374007360 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 59374007361 substrate binding pocket [chemical binding]; other site 59374007362 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 59374007363 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 59374007364 Virulence protein [General function prediction only]; Region: COG3943 59374007365 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 59374007366 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 59374007367 dimerization interface [polypeptide binding]; other site 59374007368 ATP binding site [chemical binding]; other site 59374007369 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 59374007370 dimerization interface [polypeptide binding]; other site 59374007371 ATP binding site [chemical binding]; other site 59374007372 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 59374007373 putative active site [active] 59374007374 catalytic triad [active] 59374007375 Cupin domain; Region: Cupin_2; cl09118 59374007376 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 59374007377 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 59374007378 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 59374007379 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 59374007380 Substrate binding site; other site 59374007381 metal-binding site 59374007382 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 59374007383 putative trimer interface [polypeptide binding]; other site 59374007384 putative CoA binding site [chemical binding]; other site 59374007385 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 59374007386 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 59374007387 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 59374007388 trimer interface [polypeptide binding]; other site 59374007389 active site 59374007390 UDP-GlcNAc binding site [chemical binding]; other site 59374007391 lipid binding site [chemical binding]; lipid-binding site 59374007392 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 59374007393 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 59374007394 Diacylglycerol kinase accessory domain; Region: DAGK_acc; cl02440 59374007395 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 59374007396 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 59374007397 trimer interface [polypeptide binding]; other site 59374007398 putative metal binding site [ion binding]; other site 59374007399 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 59374007400 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 59374007401 NAD(P) binding site [chemical binding]; other site 59374007402 catalytic residues [active] 59374007403 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH5; cd08189 59374007404 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 59374007405 putative active site [active] 59374007406 metal binding site [ion binding]; metal-binding site 59374007407 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 59374007408 active site 59374007409 glycogen branching enzyme; Provisional; Region: PRK05402 59374007410 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 59374007411 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 59374007412 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 59374007413 active site 59374007414 catalytic site [active] 59374007415 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 59374007416 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 59374007417 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 59374007418 DNA binding site [nucleotide binding] 59374007419 Int/Topo IB signature motif; other site 59374007420 active site 59374007421 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; cl15292 59374007422 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; cl15292 59374007423 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 59374007424 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 59374007425 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 59374007426 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 59374007427 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 59374007428 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 59374007429 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 59374007430 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 59374007431 hypothetical protein; Provisional; Region: PRK11820 59374007432 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 59374007433 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 59374007434 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 59374007435 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 59374007436 active site 59374007437 putative substrate binding pocket [chemical binding]; other site 59374007438 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 59374007439 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 59374007440 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 59374007441 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 59374007442 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 59374007443 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 59374007444 active site 59374007445 lipoprotein signal peptidase; Provisional; Region: PRK14787 59374007446 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 59374007447 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 59374007448 active site lid residues [active] 59374007449 substrate binding pocket [chemical binding]; other site 59374007450 catalytic residues [active] 59374007451 substrate-Mg2+ binding site; other site 59374007452 aspartate-rich region 1; other site 59374007453 aspartate-rich region 2; other site